Version 1.3.7

Fixed a deprecation warning for pandas (delim_whitespace). No more support for python 2.7 (as it can't be tested any more using GitHub actions).

Version 1.3.6

Fixed a deprecation warning from pandas (using items() instead of iteritems()).

Version 1.3.5

Fix a deprecation warning from numpy (using frombuffer() instead of fromstring()). Also, pandas version should be at least 0.17.1.

Version 1.3.4

The function get_duplicated_markers() now returns a dictionary mapping original marker names to the list of new names (e.g. with :dupx concatenated). The previous release returned a set.

Version 1.3.3

The previous release (1.3.2) was missing a file for the test suite.

Version 1.3.2

Now possible to parse binary files with duplicated marker names.

Version 1.3.1

Minor improvement of performance.

Version 1.3.0

The only change in this version is that PyPlink does not load the BED file in memory. It parses the file to iterate over all markers, or seeks to a specific marker and reads its genotypes.

This help when working with huge files such as the 1000 Genomes Phase 3 dataset.

Version 1.2.0

Here are the changes in this new release of PyPlink.

• Possible to write binary pedfiles (BED file) in both SNP-major and INDIVIDUAL-major format. For now, it is not possible to read the INDIVIDUAL-major files.
• Better testing using Plink.

Version 1.1.0

Here are the changes in this new release of PyPlink.

• Possible to write binary pedfiles (BED file).
• Father and mother identification numbers are now always strings.