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summarized denovo assemblies: 98 (46,971,194 contigs), 96 (27,839,279 contigs), 92 (18,493,729 contigs). Um, that’s a lot. Previously they aligned to the Helianthus annuus genome (v1.0), so we will try that. This was in Testing for evolutionary change in restoration: A genomic comparison between ex situ, native, and commercial seed sources of Helianthus maximiliani. Fetching annuus genome (v2.0) now. It is in /
project/evolgen/data/public/genomes/helianthus/GCF_002127325.2_HanXRQr2.0-SUNRISE_genomic.fna.gzNext up, use
bwato map against reference genome.
To do:
Summarize the parse report files in /gscratch with some code to iterate over all the individual reports and get an overall count.
variant calling
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