converts sam/bam/cram/pairs into genome contact map
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
input:file
BAM/CRAM/SAM file or pairs formatted reads file
*.{bam,cram,sam,pairs.gz}
meta2:map
fasta:file
Reference sequence file
*.{fasta,fna,fa}
fai:file
Reference sequence index file
*.{fai}
pretext
*.pretext:file
pretext map
*.pretext
versions
versions.yml:file
File containing software versions
versions.yml
Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.
