FORGe: prioritizing variants for graph genomes

Pritt, J.; Langmead, B.

doi:10.1101/311720

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bioRxiv · 10.1101/311720

FORGe: prioritizing variants for graph genomes

Pritt, J.·Langmead, B.

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Abstract

There is growing interest in using genetic variants to augment the reference genome into a \"graph genome\" to improve read alignment accuracy and reduce allelic bias. While adding a variant has the positive effect of removing an undesirable alignment-score penalty, it also increases both the ambiguity of the reference genome and the cost of storing and querying the genome index. We introduce methods and a software tool called FORGe for modeling these effects and prioritizing variants accordingly. We show that FORGe enables a range of advantageous and measurable trade-offs between accuracy and computational overhead.

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Pritt, J., Langmead, B.. 2018-04-30. FORGe: prioritizing variants for graph genomes. https://doi.org/10.1101/311720

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