gvcfgenotyper 2018.01.07

A utility for merging and genotyping Illumina-style GVCFs. This tool provides basic genome VCF (GVCF) merging and genotyping functionality to provide a multisample BCF/VCF suitable for cohort analysis. Variants are normalised and decomposed on-the-fly before merging. Samples that do not have a particular variant have their homozygous reference confidence estimated from the GVCF depth blocks using some simple heuristics.

Accessing the software

To load the module:

$ module load gvcfgenotyper/2018.01.07-iomkl-2018a

Accessing Previous Versions

Wherever possible, previous versions of this application will be retained for continuity, especially for research projects that require a consistent version of the software throughout the project. Such versions, however, may be unsupported by IT Services or the applications vendor, and may be withdrawn at short or no notice if they can no longer run on the cluster - for example, essential operating system upgrades may be incompatible with old versions.

Previous versions of this application are recorded below:

At present there are no previous versions of this application on the BlueBEAR service.

Known Problems & Limitations


Other Information

The Support Level for this application is An.

Visit the gvcfgenotyper website for more information regarding this application.

Last modified: 26 November 2018