PLINK reader for Python.

The IKMB GWAS Association Testing Pipeline

Automated Tool for Global Screening Array analysis

Automate repetitive Putty/SSH tasks, a free alternative to Ansible

Perform liftover on plink files

Command Line Python Utility to convert from plink format to Abecasis Lab's QTDT format (used by Merlin).

population structural variant calling with smoove

Lightweight and memory efficient reader for PLINK BED files. It supports both SNP-major and individual-major formats. Written in Python.

Get information about direction of agreement for any two lists of SNPs, based on LDlink and plink

Python library to work with PLINK files.

Map SNP positions to a supplied reference assembly using BLAST. Filter results for best hit. Output in plink format.

Fast and minimal PLINK file processing with numba

Repository accompanying the task given for the Data Steward position interview

Very basic Snakemake workflow

A python script to remove duplicate snps from plink files and recode the resultant files into plink binaries free of duplicate snps

The CGR GWAS QC processing workflow.

So, ansible is some pretty fucked code. It's got some really bad hacks, and the authors didn't understand that python offers some elegant and portable ways of doing some of the things that they do. Anyways, this is my port of ansible to native windows. It uses plink.exe for doing ssh connections, so put that somewhere in your path. You're welcom…