Calculate pairwise nucleotide identity with respect to a reference sequence
meta{:bash}
:map
Groovy Map containing information, e.g. [ id:‘test’, single_end:false ]
fasta{:bash}
:file
One fasta file or a list of multiple fasta files to perform president on. Has to be uncompressed!
*.{fasta,fas,fa,fna,ffn,faa,mpfa,frn}
meta2{:bash}
Groovy Map containing information about the reference genome
reference{:bash}
Fasta of a reference genome. Has to be uncompressed!
compress{:bash}
:boolean
Set to “true” if fasta output should be compressed
valid_fasta{:bash}
Fasta file containing sequences which passed the qc (“valid.fasta”). If true is set on the “compress” input value, the file is gz-compressed.
*.{fasta.gz, fasta}
${prefix}_valid.fasta*{:bash}
id_fasta{:bash}
invalid_fasta{:bash}
${prefix}_invalid.fasta*{:bash}
Fasta file containing sequences which didn’t pass the qc (“invalid.fasta”). If true is set on the “compress” input value, the files are gz-compressed.
*_invalid.{fasta.gz, fasta}
report{:bash}
*.tsv{:bash}
Report with some information for every sample, like statistic values. See docs for details
*.tsv
log{:bash}
*.log{:bash}
Log file of president
*.log
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
