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

Metadata

Release files for checkbed 0.2.8

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for checkbed 0.2.8
File	Size	Uploaded	Provenance
checkbed-0.2.8.tar.gz	3.9 kB	Oct 31, 2014	Without provenance	Details

Release files / checkbed-0.2.8.tar.gz

Download URL	checkbed-0.2.8.tar.gz
Size	3.9 kB
Tags	Source
SHA-256 checksum How to use checksums	`14077bb8185932351c610bfc7a25d6b3b2b20ff9d80561527d274775f116cdc8`
BLAKE2b-256 checksum How to use checksums	`620ea1e4efea28effc1f5060e22011848eca292b07d3619752bfb6882d059cab`
Upload date	Oct 31, 2014
Uploaded using Trusted Publishing? What is trusted publishing?	No

Security for checkbed 0.2.8

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