Data supplement to "Domestication Reshaped the Genetic Basis of Inbreeding Depression in a Maize Landrace Compared to its Wild Relative, Teosinte"

Data files and scripts used for analysis of this paper.
ReadMe.txt Overall description of files and folders in this data supplement, including explanation of data file columns

Data files:49parents_KNNi_40255.hmp.txt Genoptype calls at 40255 SNPs, missing data imputed with KNNi. Hapmap file format
Landraces_FL1314_all_data_updated_4398taxa_Fest_2_ed.csv Trait data file for maize Tuxpeno population
Landraces_FL1314_all_data_updated_4398taxa_for_diallel.csv Trait data file for maize Tuxpeno population, formatted for diallel asreml script
parentcalls_itr2_Combined_LR13_LR14_parents2_AGPv4_filter0219.hmp.txt.gz hplotype calls for maize parents and progeny
parentcalls_ZeaGBSv27raw_RareAllelesC2TeoCurated_depth_AGPv4_filtered0210_rnd2.hmp.txt Haplotype calls for teosinte parents and progeny
Readme (parentcalls_Info).txt Text file explaining the A,C,G, and T codes used in the haplotype call files. These are NOT base pair calls, they are codes for which parental haplotypes are inherited at each SNP.
teo_genetic_map.csv Linkage map of teosinte population
teo_imp_02102017_traits-2 Trait data file for teosinte population
teosinte_pheno_cov_pc20190426_ed.txt

xo_Combined_LR13_LR14_parents2_AGPv4_filter0219.txt Text file containing inferred position of crossovers within each maize progeny
xo_ZeaGBSv27raw_RareAllelesC2TeoCurated_depth_AGPv4_filtered0210
Text file containing inferred position of crossovers within each teosinte progeny
teo_imp_02102017_traits-2.csv Trait data file for teosinte population
Zipped folders containing data analysis scripts:
Scripts_data_for_diallel.zip
Scripts_for_Inbreeding_Depression_Summary_and_Figures.zip
Scripts_for_rare_allele_scan_maize.zip
Scripts_for_rare_allele_scan_teo.zip
Scripts_for_regression_on_F.zip

Supplemental_Figures.zip
see "List of Supplemental Figures.docx" contained in this zipped archive for description of files.
Supplemental_Tables.zipsee "Maize Teosinte Inbreeding Depression List of Supplemental Tables.docx" contained in this zipped archive for description of files.