search profile(s) against a sequence database
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
hmmfile{:bash}
:file
One or more HMM profiles created with hmmbuild
*.{hmm,hmm.gz}
seqdb{:bash}
Database of sequences in FASTA format
*.{fasta,fna,faa,fa,fasta.gz,fna.gz,faa.gz,fa.gz}
write_align{:bash}
:boolean
Flag to save optional alignment output. Specify with ‘true’ to save.
write_target{:bash}
Flag to save optional per target summary. Specify with ‘true’ to save.
write_domain{:bash}
Flag to save optional per domain summary. Specify with ‘true’ to save.
output{:bash}
*.txt.gz{:bash}
Human readable output summarizing hmmsearch results
*.{txt.gz}
alignments{:bash}
*.sto.gz{:bash}
Optional multiple sequence alignment (MSA) in Stockholm format
*.{sto.gz}
target_summary{:bash}
*.tbl.gz{:bash}
Optional tabular (space-delimited) summary of per-target output
*.{tbl.gz}
domain_summary{:bash}
*.domtbl.gz{:bash}
Optional tabular (space-delimited) summary of per-domain output
*.{domtbl.gz}
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Biosequence analysis using profile hidden Markov models
