Variation matrices in VCF format are provided for sequence variants (SNPs, indels) discovered from whole-genome shotgun sequencing of 177 barley samples. Subsets of these are provided for variants in the intersection between WGS and exome capture data. Moreover, BED files detailing the regions covered by these datasets (WGS and WGS+Exome) are included. Further details can be found in README files in the respective folders.