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A class for checking plink bed files

Project 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)


  • Python 3
  • pip3 for installation



git clone
cd checkbed
python3 install

Using pip:

From github:

pip3 install --upgrade

or from PyPI:

pip3 install --upgrade checkbed


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

Project details

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