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