Purge haplotigs and overlaps for an assembly
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
basecov{:bash}
:file
A file containing a histogram of base coverage. Obtained from PURGEDUPS_PBCSTAT
*.PB.base.cov
cutoff{:bash}
A file containing duplication cutoff points. Obtained from PURGEDUPS_CALCUTS
*.cutoffs
paf{:bash}
A file of assembly alignments to itself
*.paf(.gz)?
bed{:bash}
*.dups.bed{:bash}
A bed file of sequences purged of false duplications
*.bed
log{:bash}
*.purge_dups.log{:bash}
A log of the tool output
*.log
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Purge_dups is a package used to purge haplotigs and overlaps in an assembly based on read depth
