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CHANGELOG.rst

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Change Log

All notable changes to this project are documented in this file.

Unreleased

Added

  • Suport hg38 genome and add hg19 and hg38 blacklist bed files
  • Add inputs and outputs description to the README file
  • Add support for subpeak files in narrowPeak format

Changed

Fixed

  • Remove unused tfs parameter
  • Fix chrom_path input formatting so it does not require a '/' at the end

1.0.0 2018-10-22

Added

  • Make crc a callable python function
  • Set up testing infrastructure

Changed

  • Remove _CLIQUES_ALL.txt table from the outputs and report only the top 100 ranked cliques in the _CLIQUE_SCORES_DEGREE.txt table

Fix

  • Remove the deprecated _CLIQUE_SCORES_VSA.txt table, the creation of which was very memory consuming
  • Make the bam input work
  • Fix assigning enhancers to missing genes
  • Fix identifying gene column in activity file
  • Make the mask_file input work