add --extract and --exclude options to filter snps in gwas.py - Githubissues

comorment / containers

CoMorMent-Containers

https://www.comorment.uio.no

GNU General Public License v3.0

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add --extract and --exclude options to filter snps in gwas.py #244

Closed ttfiliz closed 6 months ago

ttfiliz commented 6 months ago

Fixes #237

Changes proposed in this pull request:

Added the options --extract, --extract-step1, --extract-step2, --exclude, --exclude-step1 and --exclude-step2 options to gwas.py

Before submitting

[X] I've read and followed all steps in the Making a pull request section of the CONTRIBUTING docs.
[X] I've updated or added any relevant documentation and docstrings where appropriate in the codebase.
[ ] If this PR fixes a bug, I've added a test that will fail without my fix.
[ ] If this PR adds a new feature, I've added tests that sufficiently cover my new functionality.

ofrei commented 6 months ago

@ttfiliz looks good! Please merge if this is ready 👍