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

