HomopolymerRun

Largest contiguous homopolymer run of the variant allele

Category Variant Annotations

Annotation type ExperimentalAnnotation

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Overview

Calculates the length of the largest contiguous homopolymer run of the variant allele in either direction on the reference.

Caveats

This can only be computed for bi-allelic sites.

This is an experimental annotation. As such, it is unsupported; we do not make any guarantees that it will work properly, and you use it at your own risk.

This needs to be computed in a more accurate manner. We currently look only at direct runs of the alternate allele adjacent to this position.

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See also Guide Index | Technical Documentation Index | Support Forum

GATK version 2.5-2-gdb4546e built at 2013/05/01 09:32:36.