Contiguate draft genome assembly
meta:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
scaffold:file
Fasta file containing scaffold
*.{fasta,fa}
meta2:map
Groovy Map containing genome information e.g. [ id:‘fasta’ ]
fasta:file
FASTA reference file
results
${prefix}.*:file
List containing abacas output files [ ‘*.abacas.bin’, ‘*.abacas.fasta’, ‘*.abacas.gaps’, ‘*.abacas.gaps.tab’, ‘*.abacas.nucmer.delta’, ‘*.abacas.nucmer.filtered.delta’, ‘*.abacas.nucmer.tiling’, ‘*.abacas.tab’, ‘*.abacas.unused.contigs.out’, ‘*.abacas.MULTIFASTA.fa’ ]
${prefix}.*
versions
versions.yml:file
File containing software versions
versions.yml
ABACAS is intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence.
