Find ligation junctions in .sam, make .pairs
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam
BAM/CRAM/SAM file
*.{bam,cram,sam}
chromsizes
chromosome size file
versions
File containing software versions
versions.yml
pairsam
parsed pair file
*.{pairsam.gz}
stat
stats of the pairs
*.{pairsam.stat}
CLI tools to process mapped Hi-C data