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1. FunctionLab/selene FunctionLab/selene Public

   a framework for training sequence-level deep learning networks

   Jupyter Notebook 373 89

2. FunctionLab/sei-framework FunctionLab/sei-framework Public

   code to run sei and obtain sei and sequence class predictions

   Python 92 6

3. FunctionLab/sei-manuscript FunctionLab/sei-manuscript Public

   Code for reproducing the Sei manuscript results

   Jupyter Notebook 15 3

4. greenelab/PathCORE-T greenelab/PathCORE-T Public

   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-analysis greenelab/PathCORE-T-analysis Public

   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 7 2

6. crosstalk-correction crosstalk-correction Public

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

   Python 1