Article

Rapid, accurate long- and short-read mapping to large pangenome graphs with vg Giraffe

2025-10-23

Abstract excerpt

<title>Abstract</title> <p>We previously introduced Giraffe, a short-read-to-pangenome graph mapper available in the vg pangenomics toolkit. Giraffe was fast and accurate for mapping short reads to human-scale pangenomes, but struggled with long reads. Long reads present a unique challenge to pangenome mapping algorithms due to their length and error profile, which allow them to take more topologically complex pa...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 6da4df7d-0b25-5abd-a2be-76f78cb38c36
DOI: 10.21203/rs.3.rs-7747403/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Rapid, accurate long- and short-read mapping to large pangenome graphs with vg GiraffeDOI 10.21203/rs.3.rs-7747403/v1Read

Rapid, accurate long- and short-read mapping to large pangenome graphs with vg GiraffeSemantic proximity Read

Genotyping common, large structural variations in 5,202 genomes using pangenomes, the Giraffe mapper, and the vg toolkitSemantic proximity Read

Pangenomics enables genotyping of known structural variants in 5202 diverse genomes.Semantic proximity Read

Personalized pangenome references.Semantic proximity Read

SVPG: A pangenome-based structural variant detection approach and rapid augmentation of pangenome graphs with new samplesSemantic proximity Read

Personalized Pangenome ReferencesSemantic proximity Read

Efficient indexing and querying of annotations in a pangenome graphSemantic proximity Read

SVarp: pangenome-based structural variant discoverySemantic proximity Read

PanVariants: Best Practice for Pangenome-based Variant Calling Pipeline and FrameworkSemantic proximity Read

Panacus: fast and exact pangenome growth and core size estimationSemantic proximity Read

Fast and Accurate Genomic Analyses using Genome GraphsSemantic proximity Read

Pangenome graph construction from genome alignments with Minigraph-Cactus.Semantic proximity Read