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
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