Small fixes to the CrossMap parts of the workflow

v23.07.1

update metromap

1000 Genomes GRCh38 reference panel and X chromosome imputation

This is a significant re-write of the original genimpute workflow.

The two main changes are:

• The workflow now uses the updated high-coverage 1000 Genomes 30x on GRCh38 reference panel.
• Imputation of chromosome X genotypes is now also supported, both in the PAR and Non-PAR regions.

Minor changes:

• The workflow has been converted to Nextflow DSL2.
• Array genotypes are now lifted from GRCh37 (hg19) to GRCh38 coordinates prior to imputation, custom chain files can be used to support older coordinate systems (e.g. hg18).
• Various bugfixes.

First release of the genotype imputation workflow

v20.11.1

Migrate container to quay.io