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Notebooks for the Berkeley course on practical neuroimaging
Python
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answers/day12
images RF: added updated git tutorial notebook
.gitignore
ANTS_normalization.ipynb some typos ?
Ancova_issues.ipynb analysing with the wrong model
FDR.ipynb
GLM_t_F.ipynb cleaning up
ICC_tests.ipynb Explaining the intra class correlation coefficient
IntroCovReg.ipynb small wordings on fdr - added a cell in introCovReg
Introducing the General Linear Model.ipynb More introduction for general linear model intro
Makefile
README.md Initial commit
RFT_FDR_old.ipynb
Registration.ipynb
Registration_full.ipynb Add notebook on correlated regressors
Simple regression.ipynb Notebooks from Havana course
Using nipy transforms.ipynb Filling out nipy transforms explanation
awesome.py DOC: just some whitespace on top of Paul's edits
bold_QC_again.ipynb
bonferroni_notes.ipynb
check_openfmri.py
checkhash.py
convolution.ipynb Typo rows for columns
correlated_regressors.ipynb More work on correlated regressors notebook
cyril.ipynb a little explanation + make it closer to original
diagnostics.ipynb Notebooks from Havana course
finding_arteries.ipynb
finding_faces.ipynb New notebooks
finding_faces_really.ipynb
finding_outliers_reprise.ipynb Cleaning for the finding outliers notebook
interpolation-padding.ipynb Paste in some good random numbers for y
introduction_to_python.ipynb
loading_images.ipynb Add diagnostics to end of loading images
low_frequency_drifts.ipynb Starting a notebook on low frequency drift modelling
model_validation_101.ipynb adding references
more_awesome.py
more_on_F_tests.ipynb cleaning up
more_on_faces.ipynb Ignoring the t statistic variability
more_on_faces_really.ipynb
motion_correction.ipynb
motion_slice_openfmri.py NF: add slice timing / motion correction
mutual_information_example.ipynb Update mutual infornation notebook
nipy_registration.ipynb
nipy_t_F_tests.ipynb Almost the same as the bay_fmri one- here for convenience
nipype_ants.ipynb Nipype ANTS sketch based on example
notes_future_course.txt feedback for future course
openfmri.py Refactor openfmri, checkhash, add tests
optimizing_designs.ipynb showing spline results
outlier_detect.ipynb Comment that the obtained variance is biased
outliers.py BF+TST : refactor outliers script with testing
principles_statistics.ipynb Small typos
psychopathy.ipynb
python_libraries.ipynb
random_fields.ipynb NF: random fields notebook
roll_your_own_cms.ipynb Slightly simplify the git notebook
run_diagnostics.py Add run diagnostics script
run_slice_time.py Add slice time script for homework
simplest_glm.ipynb adding non full rank design matrix and pinv example
slice_timing.ipynb RF: update slice timing notebook for homework
slice_timing_full.ipynb NF: add edited version of notebook for exercises
slicetime.py NF: add tests for slicetime, and fix slicetime too
slicetime_openfmri.py
smaller_bounding_box.ipynb NF: smaller bounding box example
spline_interpolation.ipynb
t_F_test.jpg Some more on F-test : correlated regressors
t_and_z_distribution.ipynb
template_registration.ipynb NF: add template registration file
temporal_derivatives.ipynb Temporal derivatives again
test_awesome_more.py
test_checkhash.py Go back to standard import for checkhash
test_openfmri.py Refactor openfmri, checkhash, add tests
test_outliers.py TST: more tests for the outlier generation
test_slicetime.py
visualization.ipynb minor changes
what_are_my_times.ipynb
what_is_an_image.ipynb NF: updating notebooks for day1 on image loading
workflow.ipynb

README.md

pna-notebooks

Notebooks for the Berkeley course on practical neuroimaging

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