pairtools

Toolkit for Chromatin Conformation Capture experiments. Handles short-reads paired reference alignments, extracts 3C-specific information, and perform common tasks such as sorting, filtering, and deduplication

https://github.com/mirnylab/pairtools

The module parses summary statistics generated by pairtools's dedup and stats tools.

File search patterns

pairtools:
  contents:
    - "total_single_sided_mapped\t"
    - "cis\t"
    - "trans\t"
    - pair_types/
  num_lines: 20