a pangenome-scale aligner
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
fasta_gz:file
BGZIPPED FASTA target file to create the mappings from.
{fa.gz,fna.gz,fasta.gz}
paf:file
Optional inpute file in PAF format to derive the precise alignments for.
*.{paf}
gzi:file
The GZI index of the input FASTA file.
*.{gzi}
fai:file
The FASTA index of the input FASTA file.
*.{fai}
query_self:boolean
If set to true, the input FASTA will also be used as the query FASTA.
fasta_query_list:file
Optional inpute file in FASTA format specifying the query sequences as a list.
*.{fa,fna,fasta}
paf
*.paf:file
Alignments in PAF format
versions
versions.yml:file
File containing software versions
versions.yml
