Exploring NGS data of zea mays
Maize HapMapV3.2.1 genotypes (without imputation), for more information refer to panzea.
icd /iplant/home/shared/panzea/hapmap3/hmp321/unimputed/
- WGS data from 1,210 maize lines.
- 83 million SNPs (30 million SNPs marked with LLD are high confidence markers)
The current version is ZeaGBSv2.7. I get the data via the following path on CyVerse (iPlant):
icd /iplant/home/shared/panzea/genotypes/GBS/v27/
iget AllZeaGBSv2.7_publicSamples_imputedV3b_agpv3_sorted.vcf.gz
- It contains genotypes for 955,690 SNPs at more than 60K taxa (samples), 17,280 of which are public.
- AGPv3 coordinates in hapmap and VCF formats.
This repo is open source, licensed under GPLv3. But most of the data were collected from various online resources generated by different groups. Please refer data usage policies to the original providers.