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<ul>
<li class="toctree-l1"><a class="reference internal" href="introduction.html">1. Introduction: nilearn in a nutshell</a><ul>
<li class="toctree-l2"><a class="reference internal" href="introduction.html#what-is-nilearn-mvpa-decoding-predictive-models-functional-connectivity">1.1. What is nilearn: MVPA, decoding, predictive models, functional connectivity</a><ul>
<li class="toctree-l3"><a class="reference internal" href="introduction.html#why-is-machine-learning-relevant-to-neuroimaging-a-few-examples">1.1.1. Why is machine learning relevant to NeuroImaging? A few examples!</a></li>
</ul>
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<li class="toctree-l2"><a class="reference internal" href="introduction.html#installing-nilearn">1.2. Installing nilearn</a></li>
<li class="toctree-l2"><a class="reference internal" href="introduction.html#python-for-neuroimaging-a-quick-start">1.3. Python for NeuroImaging, a quick start</a><ul>
<li class="toctree-l3"><a class="reference internal" href="introduction.html#your-first-steps-with-nilearn">1.3.1. Your first steps with nilearn</a></li>
<li class="toctree-l3"><a class="reference internal" href="introduction.html#scientific-computing-with-python">1.3.2. Scientific computing with Python</a><ul>
<li class="toctree-l4"><a class="reference internal" href="introduction.html#basic-numerics">1.3.2.1. Basic numerics</a></li>
<li class="toctree-l4"><a class="reference internal" href="introduction.html#scikit-learn-machine-learning-in-python">1.3.2.2. Scikit-learn: machine learning in Python</a></li>
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</li>
<li class="toctree-l1"><a class="reference internal" href="decoding/index.html">2. Decoding and MVPA: predicting from brain images</a><ul>
<li class="toctree-l2"><a class="reference internal" href="decoding/decoding_intro.html">2.1. An introduction to decoding</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/decoding_intro.html#loading-and-preparing-the-data">2.1.1. Loading and preparing the data</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#the-haxby-2001-experiment">2.1.1.1. The Haxby 2001 experiment</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#loading-the-data-into-nilearn">2.1.1.2. Loading the data into nilearn</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/decoding_intro.html#performing-a-simple-decoding-analysis">2.1.2. Performing a simple decoding analysis</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#a-few-definitions">2.1.2.1. A few definitions</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#a-first-estimator">2.1.2.2. A first estimator</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#decoding-made-easy">2.1.2.3. Decoding made easy</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#measuring-prediction-performance">2.1.2.4. Measuring prediction performance</a><ul>
<li class="toctree-l5"><a class="reference internal" href="decoding/decoding_intro.html#cross-validation">2.1.2.4.1. Cross-validation</a></li>
<li class="toctree-l5"><a class="reference internal" href="decoding/decoding_intro.html#choosing-a-good-cross-validation-strategy">2.1.2.4.2. Choosing a good cross-validation strategy</a></li>
<li class="toctree-l5"><a class="reference internal" href="decoding/decoding_intro.html#choice-of-the-prediction-accuracy-measure">2.1.2.4.3. Choice of the prediction accuracy measure</a></li>
<li class="toctree-l5"><a class="reference internal" href="decoding/decoding_intro.html#prediction-accuracy-at-chance-using-simple-strategies">2.1.2.4.4. Prediction accuracy at chance using simple strategies</a></li>
</ul>
</li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#visualizing-the-decoder-s-weights">2.1.2.5. Visualizing the decoder’s weights</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/decoding_intro.html#decoding-without-a-mask-anova-svm">2.1.3. Decoding without a mask: Anova-SVM</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#dimension-reduction-with-feature-selection">2.1.3.1. Dimension reduction with feature selection</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/decoding_intro.html#visualizing-the-results">2.1.3.2. Visualizing the results</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="decoding/estimator_choice.html">2.2. Choosing the right predictive model for neuroimaging</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/estimator_choice.html#predictions-regression-classification-and-multi-class">2.2.1. Predictions: regression, classification and multi-class</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/estimator_choice.html#regression">2.2.1.1. Regression</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/estimator_choice.html#classification-two-classes-or-multi-class">2.2.1.2. Classification: two classes or multi-class</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/estimator_choice.html#different-linear-models">2.2.2. Different linear models</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/estimator_choice.html#setting-estimator-parameters">2.2.3. Setting estimator parameters</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/estimator_choice.html#bagging-several-models">2.2.4. Bagging several models</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/estimator_choice.html#references">2.2.5. References</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="decoding/frem.html">2.3. FREM: fast ensembling of regularized models for robust decoding</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/frem.html#frem-pipeline">2.3.1. FREM pipeline</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/frem.html#empirical-comparisons">2.3.2. Empirical comparisons</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/frem.html#decoding-performance-increase-on-haxby-dataset">2.3.2.1. Decoding performance increase on Haxby dataset</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/frem.html#spatial-regularization-of-decoding-maps-on-mixed-gambles-study">2.3.2.2. Spatial regularization of decoding maps on mixed gambles study</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/frem.html#references">2.3.3. References</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="decoding/space_net.html">2.4. SpaceNet: decoding with spatial structure for better maps</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/space_net.html#the-spacenet-decoder">2.4.1. The SpaceNet decoder</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/space_net.html#related-example">2.4.2. Related example</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/space_net.html#references">2.4.3. References</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="decoding/searchlight.html">2.5. Searchlight : finding voxels containing information</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/searchlight.html#principle-of-the-searchlight">2.5.1. Principle of the Searchlight</a></li>
<li class="toctree-l3"><a class="reference internal" href="decoding/searchlight.html#preparing-the-data">2.5.2. Preparing the data</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#masking">2.5.2.1. Masking</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/searchlight.html#setting-up-the-searchlight">2.5.3. Setting up the searchlight</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#classifier">2.5.3.1. Classifier</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#score-function">2.5.3.2. Score function</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#cross-validation">2.5.3.3. Cross validation</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#sphere-radius">2.5.3.4. Sphere radius</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/searchlight.html#visualization">2.5.4. Visualization</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#id6">2.5.4.1. Searchlight</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/searchlight.html#comparing-to-massively-univariate-analysis-f-score-or-spm">2.5.4.2. Comparing to massively univariate analysis: F_score or SPM</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/searchlight.html#references">2.5.5. References</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="decoding/going_further.html">2.6. Running scikit-learn functions for more control on the analysis</a><ul>
<li class="toctree-l3"><a class="reference internal" href="decoding/going_further.html#performing-decoding-with-scikit-learn">2.6.1. Performing decoding with scikit-learn</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/going_further.html#using-scikit-learn-estimators">2.6.1.1. Using scikit-learn estimators</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/going_further.html#cross-validation-with-scikit-learn">2.6.1.2. Cross-validation with scikit-learn</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/going_further.html#measuring-the-chance-level">2.6.1.3. Measuring the chance level</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/going_further.html#going-further-with-scikit-learn">2.6.2. Going further with scikit-learn</a><ul>
<li class="toctree-l4"><a class="reference internal" href="decoding/going_further.html#decoding-without-a-mask-anova-svm-using-scikit-learn">2.6.2.1. Decoding without a mask: Anova-SVM using scikit-learn</a></li>
<li class="toctree-l4"><a class="reference internal" href="decoding/going_further.html#using-any-other-model-in-the-pipeline">2.6.2.2. Using any other model in the pipeline</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="decoding/going_further.html#setting-estimator-parameters">2.6.3. Setting estimator parameters</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="connectivity/index.html">3. Functional connectivity and resting state</a><ul>
<li class="toctree-l2"><a class="reference internal" href="connectivity/functional_connectomes.html">3.1. Extracting times series to build a functional connectome</a><ul>
<li class="toctree-l3"><a class="reference internal" href="connectivity/functional_connectomes.html#time-series-from-a-brain-parcellation-or-maxprob-atlas">3.1.1. Time-series from a brain parcellation or “MaxProb” atlas</a><ul>
<li class="toctree-l4"><a class="reference internal" href="connectivity/functional_connectomes.html#brain-parcellations">3.1.1.1. Brain parcellations</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/functional_connectomes.html#extracting-signals-on-a-parcellation">3.1.1.2. Extracting signals on a parcellation</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/functional_connectomes.html#time-series-from-a-probabilistic-atlas">3.1.2. Time-series from a probabilistic atlas</a><ul>
<li class="toctree-l4"><a class="reference internal" href="connectivity/functional_connectomes.html#probabilistic-atlases">3.1.2.1. Probabilistic atlases</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/functional_connectomes.html#extracting-signals-from-a-probabilistic-atlas">3.1.2.2. Extracting signals from a probabilistic atlas</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/functional_connectomes.html#a-functional-connectome-a-graph-of-interactions">3.1.3. A functional connectome: a graph of interactions</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/functional_connectomes.html#a-functional-connectome-extracting-coordinates-of-regions">3.1.4. A functional connectome: extracting coordinates of regions</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="connectivity/connectome_extraction.html">3.2. Connectome extraction: inverse covariance for direct connections</a><ul>
<li class="toctree-l3"><a class="reference internal" href="connectivity/connectome_extraction.html#sparse-inverse-covariance-for-functional-connectomes">3.2.1. Sparse inverse covariance for functional connectomes</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/connectome_extraction.html#sparse-inverse-covariance-on-multiple-subjects">3.2.2. Sparse inverse covariance on multiple subjects</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/connectome_extraction.html#comparing-the-different-approaches-on-simulated-data">3.2.3. Comparing the different approaches on simulated data</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/connectome_extraction.html#linking-total-and-direct-interactions-at-the-group-level">3.2.4. Linking total and direct interactions at the group level</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="connectivity/resting_state_networks.html">3.3. Extracting functional brain networks: ICA and related</a><ul>
<li class="toctree-l3"><a class="reference internal" href="connectivity/resting_state_networks.html#multi-subject-ica-canica">3.3.1. Multi-subject ICA: CanICA</a><ul>
<li class="toctree-l4"><a class="reference internal" href="connectivity/resting_state_networks.html#objective">3.3.1.1. Objective</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/resting_state_networks.html#fitting-canica-model-with-nilearn">3.3.1.2. Fitting CanICA model with nilearn</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/resting_state_networks.html#visualizing-results">3.3.1.3. Visualizing results</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/resting_state_networks.html#interpreting-such-components">3.3.1.4. Interpreting such components</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/resting_state_networks.html#an-alternative-to-ica-dictionary-learning">3.3.2. An alternative to <span class="xref std std-term">ICA</span>: <span class="xref std std-term">Dictionary learning</span></a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="connectivity/region_extraction.html">3.4. Region Extraction for better brain parcellations</a><ul>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#fetching-movie-watching-based-functional-datasets">3.4.1. Fetching movie-watching based functional datasets</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#brain-maps-using-dictionary-learning">3.4.2. Brain maps using <span class="xref std std-term">Dictionary learning</span></a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#visualization-of-dictionary-learning-maps">3.4.3. Visualization of <span class="xref std std-term">Dictionary learning</span> maps</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#region-extraction-with-dictionary-learning-maps">3.4.4. Region Extraction with <span class="xref std std-term">Dictionary learning</span> maps</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#visualization-of-region-extraction-results">3.4.5. Visualization of Region Extraction results</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#computing-functional-connectivity-matrices">3.4.6. Computing functional connectivity matrices</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#visualization-of-functional-connectivity-matrices">3.4.7. Visualization of functional connectivity matrices</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/region_extraction.html#validating-results">3.4.8. Validating results</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="connectivity/parcellating.html">3.5. Clustering to parcellate the brain in regions</a><ul>
<li class="toctree-l3"><a class="reference internal" href="connectivity/parcellating.html#data-loading-movie-watching-data">3.5.1. Data loading: movie-watching data</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/parcellating.html#applying-clustering">3.5.2. Applying clustering</a></li>
<li class="toctree-l3"><a class="reference internal" href="connectivity/parcellating.html#using-and-visualizing-the-resulting-parcellation">3.5.3. Using and visualizing the resulting parcellation</a><ul>
<li class="toctree-l4"><a class="reference internal" href="connectivity/parcellating.html#visualizing-the-parcellation">3.5.3.1. Visualizing the parcellation</a></li>
<li class="toctree-l4"><a class="reference internal" href="connectivity/parcellating.html#compressed-representation">3.5.3.2. Compressed representation</a></li>
</ul>
</li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="plotting/index.html">4. Plotting brain images</a><ul>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#different-plotting-functions">4.1. Different plotting functions</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#different-display-modes">4.2. Different display modes</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#available-colormaps">4.3. Available Colormaps</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#adding-overlays-edges-contours-contour-fillings-markers-scale-bar">4.4. Adding overlays, edges, contours, contour fillings, markers, scale bar</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#displaying-or-saving-to-an-image-file">4.5. Displaying or saving to an image file</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#surface-plotting">4.6. Surface plotting</a></li>
<li class="toctree-l2"><a class="reference internal" href="plotting/index.html#interactive-plots">4.7. Interactive plots</a><ul>
<li class="toctree-l3"><a class="reference internal" href="plotting/index.html#d-plots-of-statistical-maps-or-atlases-on-the-cortical-surface">4.7.1. 3D Plots of statistical maps or atlases on the cortical surface</a></li>
<li class="toctree-l3"><a class="reference internal" href="plotting/index.html#d-plots-of-connectomes">4.7.2. 3D Plots of connectomes</a></li>
<li class="toctree-l3"><a class="reference internal" href="plotting/index.html#d-plots-of-markers">4.7.3. 3D Plots of markers</a></li>
<li class="toctree-l3"><a class="reference internal" href="plotting/index.html#interactive-visualization-of-statistical-map-slices">4.7.4. Interactive visualization of statistical map slices</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="glm/index.html">5. Analyzing fMRI using GLMs</a><ul>
<li class="toctree-l2"><a class="reference internal" href="glm/glm_intro.html">5.1. An introduction to GLMs in fMRI statistical analysis</a><ul>
<li class="toctree-l3"><a class="reference internal" href="glm/glm_intro.html#a-primer-on-bold-fmri-data-analysis">5.1.1. A primer on BOLD-fMRI data analysis</a><ul>
<li class="toctree-l4"><a class="reference internal" href="glm/glm_intro.html#what-is-fmri">5.1.1.1. What is fMRI ?</a></li>
<li class="toctree-l4"><a class="reference internal" href="glm/glm_intro.html#fmri-data-modelling">5.1.1.2. fMRI data modelling</a></li>
<li class="toctree-l4"><a class="reference internal" href="glm/glm_intro.html#fmri-statistical-analysis">5.1.1.3. fMRI statistical analysis</a></li>
<li class="toctree-l4"><a class="reference internal" href="glm/glm_intro.html#multiple-comparisons">5.1.1.4. Multiple Comparisons</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="glm/first_level_model.html">5.2. First level models</a><ul>
<li class="toctree-l3"><a class="reference internal" href="glm/first_level_model.html#hrf-models">5.2.1. HRF models</a></li>
<li class="toctree-l3"><a class="reference internal" href="glm/first_level_model.html#design-matrix-event-based-and-time-series-based">5.2.2. Design matrix: event-based and time series-based</a><ul>
<li class="toctree-l4"><a class="reference internal" href="glm/first_level_model.html#event-based">5.2.2.1. Event-based</a></li>
<li class="toctree-l4"><a class="reference internal" href="glm/first_level_model.html#time-series-based">5.2.2.2. Time series-based</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="glm/first_level_model.html#fitting-a-first-level-model">5.2.3. Fitting a first level model</a><ul>
<li class="toctree-l4"><a class="reference internal" href="glm/first_level_model.html#computing-contrasts">5.2.3.1. Computing contrasts</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="glm/first_level_model.html#extracting-predicted-time-series-and-residuals">5.2.4. Extracting predicted time series and residuals</a></li>
<li class="toctree-l3"><a class="reference internal" href="glm/first_level_model.html#surface-based-analysis">5.2.5. Surface-based analysis</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="glm/second_level_model.html">5.3. Second level models</a><ul>
<li class="toctree-l3"><a class="reference internal" href="glm/second_level_model.html#fitting-a-second-level-model">5.3.1. Fitting a second level model</a></li>
<li class="toctree-l3"><a class="reference internal" href="glm/second_level_model.html#thresholding-statistical-maps">5.3.2. Thresholding statistical maps</a></li>
<li class="toctree-l3"><a class="reference internal" href="glm/second_level_model.html#multiple-comparisons-correction">5.3.3. Multiple comparisons correction</a></li>
<li class="toctree-l3"><a class="reference internal" href="glm/second_level_model.html#voxel-based-morphometry">5.3.4. Voxel based morphometry</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="manipulating_images/index.html">6. Manipulation brain volumes with nilearn</a><ul>
<li class="toctree-l2"><a class="reference internal" href="manipulating_images/input_output.html">6.1. Input and output: neuroimaging data representation</a><ul>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/input_output.html#inputing-data-file-names-or-image-objects">6.1.1. Inputing data: file names or image objects</a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/input_output.html#file-names-and-objects-3d-and-4d-images">6.1.1.1. File names and objects, 3D and 4D images</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/input_output.html#file-name-matching-globbing-and-user-path-expansion">6.1.1.2. File name matching: “globbing” and user path expansion</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/input_output.html#fetching-open-datasets-from-internet">6.1.2. Fetching open datasets from Internet</a></li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/input_output.html#understanding-neuroimaging-data">6.1.3. Understanding neuroimaging data</a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/input_output.html#nifti-and-analyze-data">6.1.3.1. Nifti and Analyze data</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/input_output.html#niimg-like-objects">6.1.3.2. Niimg-like objects</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/input_output.html#text-files-phenotype-or-behavior">6.1.3.3. Text files: phenotype or behavior</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="manipulating_images/manipulating_images.html">6.2. Manipulating images: resampling, smoothing, masking, ROIs…</a><ul>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/manipulating_images.html#functions-for-data-preparation-and-image-transformation">6.2.1. Functions for data preparation and image transformation</a></li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/manipulating_images.html#resampling-images">6.2.2. Resampling images</a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/manipulating_images.html#resampling-one-image-to-match-another-one">6.2.2.1. Resampling one image to match another one</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/manipulating_images.html#resampling-to-a-specific-target-affine-shape-or-resolution">6.2.2.2. Resampling to a specific target affine, shape, or resolution</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/manipulating_images.html#accessing-individual-volumes-in-4d-images">6.2.3. Accessing individual volumes in 4D images</a></li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/manipulating_images.html#computing-and-applying-spatial-masks">6.2.4. Computing and applying spatial masks</a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/manipulating_images.html#extracting-a-brain-mask">6.2.4.1. Extracting a brain mask</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/manipulating_images.html#masking-data-from-4d-nifti-images-to-2d-data-arrays">6.2.4.2. Masking data: from 4D Nifti images to 2D data arrays</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/manipulating_images.html#image-operations-creating-a-roi-mask-manually">6.2.5. Image operations: creating a ROI mask manually</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="manipulating_images/masker_objects.html">6.3. From neuroimaging volumes to data matrices: the masker objects</a><ul>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/masker_objects.html#the-concept-of-masker-objects">6.3.1. The concept of “masker” objects</a></li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/masker_objects.html#niftimasker-applying-a-mask-to-load-time-series">6.3.2. <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiMasker</span></code>: applying a mask to load time-series</a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#custom-data-loading-loading-only-the-first-100-time-points">6.3.2.1. Custom data loading: loading only the first 100 time points</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#controlling-how-the-mask-is-computed-from-the-data">6.3.2.2. Controlling how the mask is computed from the data</a><ul>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#visualizing-the-computed-mask">6.3.2.2.1. Visualizing the computed mask</a></li>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#different-masking-strategies">6.3.2.2.2. Different masking strategies</a></li>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#extra-mask-parameters-opening-cutoff">6.3.2.2.3. Extra mask parameters: opening, cutoff…</a></li>
</ul>
</li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#common-data-preparation-steps-smoothing-filtering-resampling">6.3.2.3. Common data preparation steps: smoothing, filtering, resampling</a><ul>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#smoothing">6.3.2.3.1. Smoothing</a></li>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#temporal-filtering-and-confound-removal">6.3.2.3.2. Temporal Filtering and confound removal</a></li>
<li class="toctree-l5"><a class="reference internal" href="manipulating_images/masker_objects.html#resampling-resizing-and-changing-resolutions-of-images">6.3.2.3.3. Resampling: resizing and changing resolutions of images</a></li>
</ul>
</li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#inverse-transform-unmasking-data">6.3.2.4. Inverse transform: unmasking data</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/masker_objects.html#extraction-of-signals-from-regions-niftilabelsmasker-niftimapsmasker">6.3.3. Extraction of signals from regions: <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiLabelsMasker</span></code>, <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiMapsMasker</span></code></a><ul>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#regions-definition">6.3.3.1. Regions definition</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#niftilabelsmasker-usage">6.3.3.2. <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiLabelsMasker</span></code> Usage</a></li>
<li class="toctree-l4"><a class="reference internal" href="manipulating_images/masker_objects.html#niftimapsmasker-usage">6.3.3.3. <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiMapsMasker</span></code> Usage</a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="manipulating_images/masker_objects.html#extraction-of-signals-from-seeds-niftispheresmasker">6.3.4. Extraction of signals from seeds: <code class="xref py py-class docutils literal notranslate"><span class="pre">NiftiSpheresMasker</span></code></a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="building_blocks/index.html">7. Advanced usage: manual pipelines and scaling up</a><ul>
<li class="toctree-l2"><a class="reference internal" href="building_blocks/manual_pipeline.html">7.1. Building your own neuroimaging machine-learning pipeline</a><ul>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/manual_pipeline.html#data-loading-and-preprocessing">7.1.1. Data loading and preprocessing</a><ul>
<li class="toctree-l4"><a class="reference internal" href="building_blocks/manual_pipeline.html#downloading-the-data">7.1.1.1. Downloading the data</a></li>
<li class="toctree-l4"><a class="reference internal" href="building_blocks/manual_pipeline.html#loading-non-image-data-experiment-description">7.1.1.2. Loading non image data: experiment description</a></li>
<li class="toctree-l4"><a class="reference internal" href="building_blocks/manual_pipeline.html#masking-the-data-from-4d-image-to-2d-array">7.1.1.3. Masking the data: from 4D image to 2D array</a><ul>
<li class="toctree-l5"><a class="reference internal" href="building_blocks/manual_pipeline.html#applying-a-mask">7.1.1.3.1. Applying a mask</a></li>
<li class="toctree-l5"><a class="reference internal" href="building_blocks/manual_pipeline.html#automatically-computing-a-mask">7.1.1.3.2. Automatically computing a mask</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/manual_pipeline.html#applying-a-scikit-learn-machine-learning-method">7.1.2. Applying a scikit-learn machine learning method</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/manual_pipeline.html#unmasking-inverse-transform">7.1.3. Unmasking (inverse_transform)</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/manual_pipeline.html#visualizing-results">7.1.4. Visualizing results</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/manual_pipeline.html#going-further">7.1.5. Going further</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="building_blocks/neurovault.html">7.2. Downloading statistical maps from the Neurovault repository</a><ul>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#specific-images-or-collections">7.2.1. Specific images or collections</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#selection-filters">7.2.2. Selection filters</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#output">7.2.3. Output</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#neurosynth-annotations">7.2.4. Neurosynth annotations</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#examples-using-neurovault">7.2.5. Examples using Neurovault</a></li>
<li class="toctree-l3"><a class="reference internal" href="building_blocks/neurovault.html#references">7.2.6. References</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="modules/reference.html">8. Reference documentation: all nilearn functions</a><ul>
<li class="toctree-l2"><a class="reference internal" href="modules/reference.html#module-nilearn.connectome">8.1. <code class="xref py py-mod docutils literal notranslate"><span class="pre">nilearn.connectome</span></code>: Functional Connectivity</a><ul>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.ConnectivityMeasure.html">8.1.1. nilearn.connectome.ConnectivityMeasure</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.connectome.ConnectivityMeasure.html#examples-using-nilearn-connectome-connectivitymeasure">8.1.1.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.connectome.ConnectivityMeasure</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.GroupSparseCovariance.html">8.1.2. nilearn.connectome.GroupSparseCovariance</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.GroupSparseCovarianceCV.html">8.1.3. nilearn.connectome.GroupSparseCovarianceCV</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.connectome.GroupSparseCovarianceCV.html#examples-using-nilearn-connectome-groupsparsecovariancecv">8.1.3.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.connectome.GroupSparseCovarianceCV</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.sym_matrix_to_vec.html">8.1.4. nilearn.connectome.sym_matrix_to_vec</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.vec_to_sym_matrix.html">8.1.5. nilearn.connectome.vec_to_sym_matrix</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.group_sparse_covariance.html">8.1.6. nilearn.connectome.group_sparse_covariance</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.cov_to_corr.html">8.1.7. nilearn.connectome.cov_to_corr</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.connectome.prec_to_partial.html">8.1.8. nilearn.connectome.prec_to_partial</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="modules/reference.html#module-nilearn.datasets">8.2. <code class="xref py py-mod docutils literal notranslate"><span class="pre">nilearn.datasets</span></code>: Automatic Dataset Fetching</a><ul>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_craddock_2012.html">8.2.1. nilearn.datasets.fetch_atlas_craddock_2012</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_destrieux_2009.html">8.2.2. nilearn.datasets.fetch_atlas_destrieux_2009</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_destrieux_2009.html#examples-using-nilearn-datasets-fetch-atlas-destrieux-2009">8.2.2.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_destrieux_2009</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_harvard_oxford.html">8.2.3. nilearn.datasets.fetch_atlas_harvard_oxford</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_harvard_oxford.html#examples-using-nilearn-datasets-fetch-atlas-harvard-oxford">8.2.3.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_harvard_oxford</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_juelich.html">8.2.4. nilearn.datasets.fetch_atlas_juelich</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_juelich.html#examples-using-nilearn-datasets-fetch-atlas-juelich">8.2.4.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_juelich</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_msdl.html">8.2.5. nilearn.datasets.fetch_atlas_msdl</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_msdl.html#examples-using-nilearn-datasets-fetch-atlas-msdl">8.2.5.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_msdl</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_difumo.html">8.2.6. nilearn.datasets.fetch_atlas_difumo</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_difumo.html#examples-using-nilearn-datasets-fetch-atlas-difumo">8.2.6.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_difumo</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_coords_power_2011.html">8.2.7. nilearn.datasets.fetch_coords_power_2011</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_coords_power_2011.html#examples-using-nilearn-datasets-fetch-coords-power-2011">8.2.7.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_coords_power_2011</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_coords_seitzman_2018.html">8.2.8. nilearn.datasets.fetch_coords_seitzman_2018</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_smith_2009.html">8.2.9. nilearn.datasets.fetch_atlas_smith_2009</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_smith_2009.html#examples-using-nilearn-datasets-fetch-atlas-smith-2009">8.2.9.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_smith_2009</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_yeo_2011.html">8.2.10. nilearn.datasets.fetch_atlas_yeo_2011</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_yeo_2011.html#examples-using-nilearn-datasets-fetch-atlas-yeo-2011">8.2.10.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_yeo_2011</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_aal.html">8.2.11. nilearn.datasets.fetch_atlas_aal</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_basc_multiscale_2015.html">8.2.12. nilearn.datasets.fetch_atlas_basc_multiscale_2015</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_basc_multiscale_2015.html#examples-using-nilearn-datasets-fetch-atlas-basc-multiscale-2015">8.2.12.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_basc_multiscale_2015</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_allen_2011.html">8.2.13. nilearn.datasets.fetch_atlas_allen_2011</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_allen_2011.html#examples-using-nilearn-datasets-fetch-atlas-allen-2011">8.2.13.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_allen_2011</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_pauli_2017.html">8.2.14. nilearn.datasets.fetch_atlas_pauli_2017</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_pauli_2017.html#examples-using-nilearn-datasets-fetch-atlas-pauli-2017">8.2.14.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_pauli_2017</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_coords_dosenbach_2010.html">8.2.15. nilearn.datasets.fetch_coords_dosenbach_2010</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_coords_dosenbach_2010.html#examples-using-nilearn-datasets-fetch-coords-dosenbach-2010">8.2.15.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_coords_dosenbach_2010</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_abide_pcp.html">8.2.16. nilearn.datasets.fetch_abide_pcp</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_adhd.html">8.2.17. nilearn.datasets.fetch_adhd</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_adhd.html#examples-using-nilearn-datasets-fetch-adhd">8.2.17.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_adhd</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_development_fmri.html">8.2.18. nilearn.datasets.fetch_development_fmri</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_development_fmri.html#examples-using-nilearn-datasets-fetch-development-fmri">8.2.18.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_development_fmri</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_haxby.html">8.2.19. nilearn.datasets.fetch_haxby</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_haxby.html#examples-using-nilearn-datasets-fetch-haxby">8.2.19.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_haxby</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_icbm152_2009.html">8.2.20. nilearn.datasets.fetch_icbm152_2009</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_icbm152_2009.html#examples-using-nilearn-datasets-fetch-icbm152-2009">8.2.20.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_icbm152_2009</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_icbm152_brain_gm_mask.html">8.2.21. nilearn.datasets.fetch_icbm152_brain_gm_mask</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_icbm152_brain_gm_mask.html#examples-using-nilearn-datasets-fetch-icbm152-brain-gm-mask">8.2.21.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_icbm152_brain_gm_mask</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_button_task.html">8.2.22. nilearn.datasets.fetch_localizer_button_task</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_button_task.html#examples-using-nilearn-datasets-fetch-localizer-button-task">8.2.22.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_localizer_button_task</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_contrasts.html">8.2.23. nilearn.datasets.fetch_localizer_contrasts</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_contrasts.html#examples-using-nilearn-datasets-fetch-localizer-contrasts">8.2.23.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_localizer_contrasts</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_calculation_task.html">8.2.24. nilearn.datasets.fetch_localizer_calculation_task</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_calculation_task.html#examples-using-nilearn-datasets-fetch-localizer-calculation-task">8.2.24.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_localizer_calculation_task</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_miyawaki2008.html">8.2.25. nilearn.datasets.fetch_miyawaki2008</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_miyawaki2008.html#examples-using-nilearn-datasets-fetch-miyawaki2008">8.2.25.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_miyawaki2008</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_surf_nki_enhanced.html">8.2.26. nilearn.datasets.fetch_surf_nki_enhanced</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_surf_nki_enhanced.html#examples-using-nilearn-datasets-fetch-surf-nki-enhanced">8.2.26.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_surf_nki_enhanced</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_surf_fsaverage.html">8.2.27. nilearn.datasets.fetch_surf_fsaverage</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_surf_fsaverage.html#examples-using-nilearn-datasets-fetch-surf-fsaverage">8.2.27.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_surf_fsaverage</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_surf_destrieux.html">8.2.28. nilearn.datasets.fetch_atlas_surf_destrieux</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_surf_destrieux.html#examples-using-nilearn-datasets-fetch-atlas-surf-destrieux">8.2.28.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_atlas_surf_destrieux</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_talairach.html">8.2.29. nilearn.datasets.fetch_atlas_talairach</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_atlas_schaefer_2018.html">8.2.30. nilearn.datasets.fetch_atlas_schaefer_2018</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_oasis_vbm.html">8.2.31. nilearn.datasets.fetch_oasis_vbm</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_oasis_vbm.html#examples-using-nilearn-datasets-fetch-oasis-vbm">8.2.31.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_oasis_vbm</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_megatrawls_netmats.html">8.2.32. nilearn.datasets.fetch_megatrawls_netmats</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_megatrawls_netmats.html#examples-using-nilearn-datasets-fetch-megatrawls-netmats">8.2.32.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_megatrawls_netmats</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_cobre.html">8.2.33. nilearn.datasets.fetch_cobre</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault.html">8.2.34. nilearn.datasets.fetch_neurovault</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault.html#examples-using-nilearn-datasets-fetch-neurovault">8.2.34.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_neurovault</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_ids.html">8.2.35. nilearn.datasets.fetch_neurovault_ids</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_ids.html#examples-using-nilearn-datasets-fetch-neurovault-ids">8.2.35.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_neurovault_ids</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_auditory_computation_task.html">8.2.36. nilearn.datasets.fetch_neurovault_auditory_computation_task</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_auditory_computation_task.html#examples-using-nilearn-datasets-fetch-neurovault-auditory-computation-task">8.2.36.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_neurovault_auditory_computation_task</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_motor_task.html">8.2.37. nilearn.datasets.fetch_neurovault_motor_task</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_neurovault_motor_task.html#examples-using-nilearn-datasets-fetch-neurovault-motor-task">8.2.37.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_neurovault_motor_task</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.get_data_dirs.html">8.2.38. nilearn.datasets.get_data_dirs</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.get_data_dirs.html#examples-using-nilearn-datasets-get-data-dirs">8.2.38.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.get_data_dirs</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_template.html">8.2.39. nilearn.datasets.load_mni152_template</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_template.html#examples-using-nilearn-datasets-load-mni152-template">8.2.39.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.load_mni152_template</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_gm_template.html">8.2.40. nilearn.datasets.load_mni152_gm_template</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_wm_template.html">8.2.41. nilearn.datasets.load_mni152_wm_template</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_brain_mask.html">8.2.42. nilearn.datasets.load_mni152_brain_mask</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_brain_mask.html#examples-using-nilearn-datasets-load-mni152-brain-mask">8.2.42.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.load_mni152_brain_mask</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_gm_mask.html">8.2.43. nilearn.datasets.load_mni152_gm_mask</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.load_mni152_wm_mask.html">8.2.44. nilearn.datasets.load_mni152_wm_mask</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_language_localizer_demo_dataset.html">8.2.45. nilearn.datasets.fetch_language_localizer_demo_dataset</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_language_localizer_demo_dataset.html#examples-using-nilearn-datasets-fetch-language-localizer-demo-dataset">8.2.45.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_language_localizer_demo_dataset</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_bids_langloc_dataset.html">8.2.46. nilearn.datasets.fetch_bids_langloc_dataset</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_openneuro_dataset_index.html">8.2.47. nilearn.datasets.fetch_openneuro_dataset_index</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_openneuro_dataset_index.html#examples-using-nilearn-datasets-fetch-openneuro-dataset-index">8.2.47.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_openneuro_dataset_index</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.select_from_index.html">8.2.48. nilearn.datasets.select_from_index</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.select_from_index.html#examples-using-nilearn-datasets-select-from-index">8.2.48.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.select_from_index</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.patch_openneuro_dataset.html">8.2.49. nilearn.datasets.patch_openneuro_dataset</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_openneuro_dataset.html">8.2.50. nilearn.datasets.fetch_openneuro_dataset</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_openneuro_dataset.html#examples-using-nilearn-datasets-fetch-openneuro-dataset">8.2.50.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_openneuro_dataset</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_first_level.html">8.2.51. nilearn.datasets.fetch_localizer_first_level</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_localizer_first_level.html#examples-using-nilearn-datasets-fetch-localizer-first-level">8.2.51.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_localizer_first_level</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_spm_auditory.html">8.2.52. nilearn.datasets.fetch_spm_auditory</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_spm_auditory.html#examples-using-nilearn-datasets-fetch-spm-auditory">8.2.52.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_spm_auditory</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_spm_multimodal_fmri.html">8.2.53. nilearn.datasets.fetch_spm_multimodal_fmri</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_spm_multimodal_fmri.html#examples-using-nilearn-datasets-fetch-spm-multimodal-fmri">8.2.53.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_spm_multimodal_fmri</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_fiac_first_level.html">8.2.54. nilearn.datasets.fetch_fiac_first_level</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.datasets.fetch_fiac_first_level.html#examples-using-nilearn-datasets-fetch-fiac-first-level">8.2.54.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.datasets.fetch_fiac_first_level</span></code></a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="modules/reference.html#module-nilearn.decoding">8.3. <code class="xref py py-mod docutils literal notranslate"><span class="pre">nilearn.decoding</span></code>: Decoding</a><ul>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.Decoder.html">8.3.1. nilearn.decoding.Decoder</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.Decoder.html#examples-using-nilearn-decoding-decoder">8.3.1.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.Decoder</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.DecoderRegressor.html">8.3.2. nilearn.decoding.DecoderRegressor</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.DecoderRegressor.html#examples-using-nilearn-decoding-decoderregressor">8.3.2.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.DecoderRegressor</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.FREMClassifier.html">8.3.3. nilearn.decoding.FREMClassifier</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.FREMClassifier.html#examples-using-nilearn-decoding-fremclassifier">8.3.3.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.FREMClassifier</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.FREMRegressor.html">8.3.4. nilearn.decoding.FREMRegressor</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.FREMRegressor.html#examples-using-nilearn-decoding-fremregressor">8.3.4.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.FREMRegressor</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.SpaceNetClassifier.html">8.3.5. nilearn.decoding.SpaceNetClassifier</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.SpaceNetRegressor.html">8.3.6. nilearn.decoding.SpaceNetRegressor</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.SpaceNetRegressor.html#examples-using-nilearn-decoding-spacenetregressor">8.3.6.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.SpaceNetRegressor</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decoding.SearchLight.html">8.3.7. nilearn.decoding.SearchLight</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decoding.SearchLight.html#examples-using-nilearn-decoding-searchlight">8.3.7.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decoding.SearchLight</span></code></a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="modules/reference.html#module-nilearn.decomposition">8.4. <code class="xref py py-mod docutils literal notranslate"><span class="pre">nilearn.decomposition</span></code>: Multivariate Decompositions</a><ul>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decomposition.CanICA.html">8.4.1. nilearn.decomposition.CanICA</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decomposition.CanICA.html#examples-using-nilearn-decomposition-canica">8.4.1.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decomposition.CanICA</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.decomposition.DictLearning.html">8.4.2. nilearn.decomposition.DictLearning</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.decomposition.DictLearning.html#examples-using-nilearn-decomposition-dictlearning">8.4.2.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.decomposition.DictLearning</span></code></a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="modules/reference.html#module-nilearn.image">8.5. <code class="xref py py-mod docutils literal notranslate"><span class="pre">nilearn.image</span></code>: Image Processing and Resampling Utilities</a><ul>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.binarize_img.html">8.5.1. nilearn.image.binarize_img</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.clean_img.html">8.5.2. nilearn.image.clean_img</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.clean_img.html#examples-using-nilearn-image-clean-img">8.5.2.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.clean_img</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.concat_imgs.html">8.5.3. nilearn.image.concat_imgs</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.concat_imgs.html#examples-using-nilearn-image-concat-imgs">8.5.3.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.concat_imgs</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.coord_transform.html">8.5.4. nilearn.image.coord_transform</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.coord_transform.html#examples-using-nilearn-image-coord-transform">8.5.4.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.coord_transform</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.copy_img.html">8.5.5. nilearn.image.copy_img</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.crop_img.html">8.5.6. nilearn.image.crop_img</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.get_data.html">8.5.7. nilearn.image.get_data</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.get_data.html#examples-using-nilearn-image-get-data">8.5.7.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.get_data</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.high_variance_confounds.html">8.5.8. nilearn.image.high_variance_confounds</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.high_variance_confounds.html#examples-using-nilearn-image-high-variance-confounds">8.5.8.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.high_variance_confounds</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.index_img.html">8.5.9. nilearn.image.index_img</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.index_img.html#examples-using-nilearn-image-index-img">8.5.9.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.index_img</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.iter_img.html">8.5.10. nilearn.image.iter_img</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.iter_img.html#examples-using-nilearn-image-iter-img">8.5.10.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.iter_img</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.largest_connected_component_img.html">8.5.11. nilearn.image.largest_connected_component_img</a></li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.load_img.html">8.5.12. nilearn.image.load_img</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.load_img.html#examples-using-nilearn-image-load-img">8.5.12.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.load_img</span></code></a></li>
</ul>
</li>
<li class="toctree-l3"><a class="reference internal" href="modules/generated/nilearn.image.math_img.html">8.5.13. nilearn.image.math_img</a><ul>
<li class="toctree-l4"><a class="reference internal" href="modules/generated/nilearn.image.math_img.html#examples-using-nilearn-image-math-img">8.5.13.1. Examples using <code class="docutils literal notranslate"><span class="pre">nilearn.image.math_img</span></code></a></li>