Bread wheat genomes graph pangenome
DOI10.5281/zenodo.6085239Zenodo6085239MaRDI QIDQ6685998FDOQ6685998
Dataset published at Zenodo repository.
Jacqueline Batley, Philipp E. Bayer, Cécile Monat, Jakob Petereit, David Edwards, Brett Chapman, Haifei Hu, Chengdao Li, Éloi Durant, Mathieu Rouard
Publication date: 15 February 2022
Copyright license: Creative Commons Attribution 4.0 International
A Giraffe and a GFA-formatted minigraph assembly of sixteen bread wheat cultivar genome assemblies. 15-wheat10+.bed.gz is the relinearised graph from gfatools gfa2bed 15-wheat10+.gfa.gz is the graph in GFA format as built by minigraph index.min, index.dist, index.giraffe.gbz are the same graph formatted for Giraffe alignments with vg giraffe v1.34.0 or later. vg autoindex -w giraffe -g 15-wheat10+.gfa -t 16 -T ./ -V 1 --target-mem 850G It is possible to convert the gfa graph to vg format: vg convert -v -g 15-wheat10+.gfa 15-wheat10+.vg To use the index in alignments using vg v1.34.0 or later: vg giraffe -Z index.giraffe.gbz -m index.min -d index.dist -f your_reads.fq mapped.gam
This page was built for dataset: Bread wheat genomes graph pangenome
