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GATK UnifiedGenotyper

A multiple-sample, technology-aware SNP and indel caller. It uses a Bayesian genotype likelihood model to estimate simultaneously the most likely genotypes and allele frequency in a population of N samples, emitting an accurate posterior probability of there being a segregating variant allele at each locus as well as for the genotype of each sample. The system can either emit just the variant sites or complete genotypes (which includes homozygous reference calls) satisfying some phred-scaled confidence value. The genotyper can make accurate calls on both single sample data and multi-sample data.

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GATK UnifiedGenotyper forum

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GATK UnifiedGenotyper classification

GATK UnifiedGenotyper specifications

Unique identifier:
OMICS_00080
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable
Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes

GATK UnifiedGenotyper distribution

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No versioning.

Credits

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Publications

Institution(s)

Program in Medical and Population Genetics, The Broad Institute of Harvard and MIT, Cambridge, MA, USA

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