Description
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
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
| Date made available | 2022 |
|---|---|
| Publisher | Zenodo |