Performs assembly scaffolding using YaHS
meta:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
fasta:file
FASTA reference file
*.{fasta,fa}
fai:file
index of the reference file
*.{fai}
hic_map:file
BED file containing coordinates of read alignments
*.{bed,bam,bin}
scaffolds_fasta
*_scaffolds_final.fa:file
FASTA file with resulting contigs
*_scaffolds_final.fa
scaffolds_agp
*_scaffolds_final.agp:file
AGP file containing contigs placing coordinates
*_scaffolds_final.agp
binary
*.bin:file
Binary data file with alignment results of Hi-C reads to the contigs in internal YaHS binary format
*.bin
versions
versions.yml:file
File containing software versions
versions.yml
YaHS, yet another Hi-C scaffolding tool.
