4.1.5. dist_pairs_indep.py¶
This script computes one distance matrix by pair of orthologs. Due to the fact that we want one matrix per pair of genes, this script runs in intersection mode (i.e. only the pairs present in all species are used).
Note
It is intended to be run instead of dist_all_pairs.py and bootstrap.py.
created: | June 2018 |
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last modified: | August 2019 |
4.1.5.1. Usage¶
Compute the distance matrix on each pair of genes independently.
usage: dist_pairs_indep [-h] [-o] [-p] [-v] orthos outdir values [values ...]
4.1.5.1.1. Positional Arguments¶
orthos | all the orthos, in TSV |
outdir | the directory in which put the results |
values | the values files, in (Gzipped) TSV |
4.1.5.1.2. Named Arguments¶
-o, --one-file | put all matrices in one file; outdir is this file name Default: False |
-p, --progress | print a progress bar; need tqdm to be installed Default: False |
-v, --verbose | be verbose Default: False |