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PicturedRocks--Single Cell RNA-seq Analysis Tool

Build Status Documentation Status

PicturedRocks is a python package that implements information-theoretic feature selection algorithms for scRNA-seq analysis.

Installing

Please ensure you have Python 3.6 or newer and have numba and scikit-learn installed. The best way to get Python and various dependencies is with Anaconda or Miniconda. Once you have a conda environment, run conda install numba scikit-learn. Then use pip to install PicturedRocks and all additional dependencies:

pip install picturedrocks

To install the latest code from github, clone our github repository. Once inside the project directory, instal by running pip install -e .. The -e option will point a symbolic link to the current directory instead of installing a copy on your system. This allows you to update picturedrocks by pulling the latest commit from github.

.. toctree::
   :maxdepth: 2
   :hidden:
   :caption: Contents:

   FeatureSelectionTutorial.ipynb
   read
   preprocessing
   plot
   markers
   interactive
   performance



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