Mask multiple sequence alignments
meta:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
unmaskedaln:file
multiple sequence alignment, Stockholm or other formats
*
fmask_rf:boolean
Flag to output optional file with final mask of non-gap RF len
fmask_all:boolean
Flag to output optional file with final mask of full aln len
gmask_rf:boolean
Flag to output optional file gap-based 0/1 mask of non-gap RF len
gmask_all:boolean
Flag to output optional file gap-based 0/1 mask of full aln len
pmask_rf:boolean
Flag to output optional file with PP-based 0/1 mask of non-gap RF len
pmask_all:boolean
Flag to output optional file with PP-based 0/1 mask of full aln len
maskfile:file
mask file, see program documentation
maskedaln
Groovy Map containing sample information e.g. [ id:‘test’, single_end
*.masked.sthlm.gz:file
Masked alignment in gzipped Stockholm format
*.sthlm.gz
fmask_rf
*.fmask-rf.gz:file
File with final mask of non-gap RF len
*.fmask-rf.gz
fmask_all
*.fmask-all.gz:file
File with final mask of full aln len
*.fmask-all.gz
gmask_rf
*.gmask-rf.gz:file
File with gap-based 0/1 mask of non-gap RF len
*.gmask-rf.gz
gmask_all
*.gmask-all.gz:file
File with gap-based 0/1 mask of full aln len
*.gmask-all.gz
pmask_rf
*.pmask-rf.gz:file
File with PP-based 0/1 mask of non-gap RF len
*.pmask-rf.gz
pmask_all
*.pmask-all.gz:file
File with PP-based 0/1 mask of full aln len
*.pmask-all.gz
versions
versions.yml:file
File containing software versions
versions.yml
Biosequence analysis using profile hidden Markov models
