A tool for sniffing out the differences in vari-Ants
Aardvark was built to quickly compare different variant call sets. Key features of Aardvark include:
- Ability to benchmark variants from a "query" set against those from a "truth" set
- Constructs haplotype sequences, allowing for basepair-level comparisons that are variant-type agnostic and that enable implicit partial credit for inexact matching variant calls
- Genotype assessment, allowing for a strict exact-match scoring (similar to traditional metrics)
- Provides output summary statistics and VCF files with annotations
- Ability to merge variants from multiple input sets
- Variants are compared in a haplotype context (sequence level), harmonizing different variant representations
- Multiple merge strategies for different scenarios from strict exact-matching to looser majority-vote schemes
- Quality of life additions: Efficient methods with a fast run-time distributed as a single binary
Authors: Matt Holt, Zev Kronenberg
Aardvark does not currently have a publication associated with it.
If you notice any missing features, bugs, or need assistance with analyzing the output of Aardvark, please open a GitHub issue.
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