Description

Compute the TCS score for a MSA or for a MSA plus a library file. Outputs the tcs as it is and a csv with just the total TCS score.

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, … ]

msa (file)

fasta file containing the alignment to be evaluated. May be gzipped or uncompressed.

*.{aln,fa,fasta,fas}{.gz,}

lib (file)

lib file containing the alignment library of the given msa.

*{.tc_lib,*_lib}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:'sample1', single_end:false ]

versions (file)

File containing software versions

versions.yml

tcs (file)

The msa represented in tcs format, prepended with TCS scores

*.tcs

scores (file)

a file containing the score of the alignment in csv format

*.scores

Tools

pigz

Parallel implementation of the gzip algorithm.