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A class for checking plink bed files

Project Description

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

Release history Release notifications

This version
History Node

0.2.8

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0.2.7

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0.2.6

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0.2.5

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0.2.3

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0.2.2

Download files

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Filename, size & hash SHA256 hash help File type Python version Upload date
checkbed-0.2.8.tar.gz (3.9 kB) Copy SHA256 hash SHA256 Source None Oct 31, 2014

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