splits an alignment into reference and query parts
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
refaln
:file
reference alignment in any supported format including phylip and fasta, may be gzipped
*.{faa,fna,fa,fasta,fa,phy,aln,alnfaa,alnfna,alnfa,mfa,faa.gz,fna.gz,fa.gz,fasta.gz,fa.gz,phy.gz,aln.gz,alnfaa.gz,alnfna.gz,alnfa.gz,mfa.gz}
fullaln
full alignment in any supported format to split into reference and query alignments
query
*query.fasta.gz
query sequence alignment in gzipped fasta format
reference
*reference.fasta.gz
reference sequence alignment in gzipped fasta format
versions
versions.yml
File containing software versions
Massively parallel phylogenetic placement of genetic sequences
