Processed genotype and phenotype data and R scripts for multi-environment GWAS in einkorn wheat

This repository contains the processed genotype and phenotype datasets andR scripts supporting the analyses reported in Govta et al., “Geneticarchitecture of environment-responsive variation in yield and grain proteincontent in einkorn wheat across Mediterranean field environments.” The deposited materials include environment-specific BLUEs and BLUPs for186 accessions, a TA10622 genotype matrix containing 2,749 QC-filtered SNPsused for GWAS, SNP physical-position metadata, a physically mappedpolymorphic marker dataset used for linkage disequilibrium analysis, a SNPquality-control summary, and the final R analysis scripts. TA10622 v1.1 was used as the final coordinate system for GWAS and functionalannotation. The repository supports reproduction of the analyses startingfrom the processed genotype and phenotype datasets. The original commercialDArT report containing 68,004 markers is not included.