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HiC-Pro

Supported Tool

HiC-Pro is an optimized and flexible pipeline for Hi-C data processing.

Description

The HiC-Pro module parses results generated by HiC-Pro, a tool for efficient processing and quality control of Hi-C data.

Please note - because this module shares sample identifiers across multiple files, the --fn_as_s_name / config.use_filename_as_sample_name functionality has been disabled and has no effect.

File search patterns

hicpro/mmapstat:
  fn: "*mapstat"
  contents: total_R
  num_lines: 10
hicpro/mpairstat:
  fn: "*pairstat"
  contents: Total_pairs_processed
  num_lines: 10
hicpro/mergestat:
  fn: "*.mergestat"
  contents: valid_interaction
  num_lines: 10
hicpro/mRSstat:
  fn: "*RSstat"
  contents: Valid_interaction_pairs
hicpro/assplit:
  fn: "*assplit.stat"