Process mapped Hi-C data
Pairtools is a simple and fast command-line framework to process sequencing data from a Hi-C experiment. Process pair-end sequence alignments and perform the following operations:
detect ligation junctions (a.k.a. Hi-C pairs) in aligned paired-end sequences of Hi-C DNA molecules
sort .pairs
files for downstream analyses
detect, tag and remove PCR/optical duplicates
generate extensive statistics of Hi-C datasets
select Hi-C pairs given flexibly defined criteria
restore .sam
alignments from Hi-C pairs.
Linter | Message | Location |
---|---|---|
optional-tests Make sure tests are only run when requested | the 'check' phase should respect #:tests? |