2024_04_03

Files used for alfalfa diversity analysis:Original files from DArT are:DAl23-8031_MADC_snpID_rename_updatedSeq_filter_miss_rm10plusHaps.csv = 12,295 microhaplotypes in 2,994 out of 3,000 regions.DAl23-8031_MADC_snpID_rename_updatedSeq_filter_miss_rm10plusHaps_RefAlt.csv = only Ref and Alt reads of target SNPs in 2,994 out of 3,000 regions.4_readDArTag_81bp.R = R script to convert the MACD files to VCF and GenoDive format.GenoDive_Micro.txt = GenoDive file with microhaplotypesGenoDive_Target.txt = GenoDive file containing Target SNPsmetadata_1 and metadata_2 contain information linking samples to populations.