Assessing graph-based read mappers against a baseline approach highlights strengths and weaknesses of current methods

Graph Peak Caller: Calling ChIP-seq peaks on graph-based reference genomes

(2019) Ivar Grytten et al.   PLoS Computational Biology

GraphTyper2 enables population-scale genotyping of structural variation using pangenome graphs

(2019) Hannes P. Eggertsson et al.   Nature Communications

Towards pan-genome read alignment to improve variation calling

(2018) Daniel Valenzuela et al.   BMC GENOMICS

Variation graph toolkit improves read mapping by representing genetic variation in the reference

(2018) Erik Garrison et al.   NATURE BIOTECHNOLOGY

Graphtyper enables population-scale genotyping using pangenome graphs

(2017) Hannes P Eggertsson et al.   NATURE GENETICS

Extensive sequencing of seven human genomes to characterize benchmark reference materials

(2016) Justin M. Zook et al.   Scientific Data

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS