Version 1.2.0 - Container use

GeCKO now uses a Singularity container to run all workflows' rules.
Conda is not needed anymore.
GeCKO only requires Snakemake and Singularity/Apptainer.
The container's image is automatically downloaded from Sylabs Cloud.

Version 1.1.0 - UMI support

GeCKO can now process sequences tagged with Unique Molecular Identifiers (UMIs) and perform duplicate removal based on UMIs using UMI-tools instead of Picard MarkDuplicates.

Version 1.0.0 - Publication release

This release corresponds to the version described in our published article:
Ardisson, M., Girodolle, J., De Mita, S. et al. GeCKO: user-friendly workflows for genotyping complex genomes using target enrichment capture. A use case on the large tetraploid durum wheat genome. Plant Methods 20, 103 (2024).