Haplotype-aware sequence alignment to pangenome graphs

G Chandra, D Gibney, C Jain - Genome Research, 2024‏ - genome.cshlp.org
Modern pangenome graphs are built using haplotype-resolved genome assemblies. When
map** reads to a pangenome graph, prioritizing alignments that are consistent with the …

Label-guided seed-chain-extend alignment on annotated De Bruijn graphs

H Mustafa, M Karasikov, N Mansouri Ghiasi… - …, 2024‏ - academic.oup.com
Motivation Exponential growth in sequencing databases has motivated scalable De Bruijn
graph-based (DBG) indexing for searching these data, using annotations to label nodes with …

MetaGraph-MLA: Label-guided alignment to variable-order De Bruijn graphs

H Mustafa, M Karasikov, G Rätsch, A Kahles - bioRxiv, 2022‏ - biorxiv.org
The amount of data stored in genomic sequence databases is growing exponentially, far
exceeding traditional indexing strategies' processing capabilities. Many recent indexing …