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1. FunctionLab/seleneFunctionLab/selenePublic

   a framework for training sequence-level deep learning networks

   Jupyter Notebook 403 91

2. FunctionLab/sei-frameworkFunctionLab/sei-frameworkPublic

   code to run sei and obtain sei and sequence class predictions

   Python 116 11

3. FunctionLab/sei-manuscriptFunctionLab/sei-manuscriptPublic

   Code for reproducing the Sei manuscript results

   Jupyter Notebook 17 3

4. greenelab/PathCORE-Tgreenelab/PathCORE-TPublic

   Methods to build a network of pathway co-occurrence relationships out of expression signatures extracted from transcriptomic compendia.

   Python 4 3

5. greenelab/PathCORE-T-analysisgreenelab/PathCORE-T-analysisPublic

   This repository is in support of the PathCORE-T paper (https://doi.org/10.1101/147645). It contains all the code and necessary data/metadata to repeat all analyses in the paper.

   Jupyter Notebook 8 2

6. crosstalk-correctioncrosstalk-correctionPublic

   Python implementation of Donato et al. (2013)'s maximum impact estimation. A pre-processing step to pathway analysis.

   Python 1