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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