checkbed 0.2.8

A class for checking plink bed files

Description

This is a package for checking plink .bed files (shifted / unshifted):

• Basic info (number of individual, number of SNPs, etc)

• Quality control (check whether the shifting is correct)

Requirements

• Python 3

• pip3 for installation

Install

Using setup.py

git clone https://github.com/kindlychung/checkbed.git
cd checkbed
python3 setup.py install

Using pip:

From github:

pip3 install --upgrade https://github.com/kindlychung/checkbed.git

or from PyPI:

pip3 install --upgrade checkbed

Usage

You need put your gmail account and password in ~/.pygmailrc, for example:

# suppose the main bed file is xxx.bed
checkcoll xxx
bedinfo xxx

Change log

• Corrected the collapsed genotype matrix