strelka 2.8.2

Strelka calls germline and somatic small variants from mapped sequencing reads. It is optimized for rapid clinical analysis of germline variation in small cohorts and somatic variation in tumor/normal sample pairs. Strelka's germline caller employs a haplotype model to improve call quality and provide short-range read-backed phasing in addition to a probabilistic variant calling model using indel error rates adaptively estimated from each input sample's sequencing data. Both germline and somatic callers include a final empirical variant rescoring step using a random forest model to reflect numerous features indicative of call reliability which may not be represented in the core variant calling probability model.

Accessing the software

To load the module:

$ module load apps/strelka/2.8.2

A collection of binaries can be viewed at ${STRELKA_ROOT}/bin.

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.

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

Known Problems & Limitations

None.

Other Information

The Support Level for this application is An.

Visit the strelka Github repository for more information regarding this application.


Last modified: 14 September 2017