Version 4.2.2

Improvements of HMM routines introduced in v4.2.0 are now also working when using scaffold.

Version 4.2.1

Fixing a bug happening when compiling using g++9 / g++10, caused by a function not returning an expected bool return statement.
Bug was not present when compiling with g++7. Thanks to Carl Nettelblad who spotted the problem.

Fourth release, v4.2.0

Major updates! All HMM routines have been rewritten for better performance. The method is now ~2x faster on SNP array data and more on sequencing data. The detection of IBD2 tracks has been greatly improved. All options --ibd2-* are now deprecated. Multi-threading is now used when compressing/decompressing VCF/BCF files (Thanks to Simone Rubinacci for this).

Third release, v4.1.3

Bug corrections in phasing using Phase sets and Haplotype Scaffold.
Bugfix from Jared O'connell in genetic map
Added alpha support for output genotype graphs + a tool to sample from it.

Second release, v4.1.2

Multiple improvements since first release, mostly concerning IBD2 mapping and missing data imputation. See documentation for more details.

Initial release of SHAPEIT4

Initial release of SHAPEIT4