--- file_transformation: - glyma.Wm82.gnm2.div2.Song_Hyten_2015.hmp.txt.gz Transformation from VCF format to HapMap format using Tassel 5.2. - glyma.Wm82.gnm2.div2.Song_Hyten_2015.Flapjack.txt.gz Transformation from HapMap into Flapjack format by removing columns "alleles","chrom","pos","strand","Assembly","center","protLSID","assayLSID","PanelLSID", and "QCcode" from the HapMap file. Heterozygotes indicated by IUPAC code are changed to the 2 alleles separated by a "/". The file is then transposed so ssIDs are columns and accessions are rows. A separate marker map file is needed for use in Flapjack. - glyma.Wm82.gnm2.div2.Song_Hyten_2015.markerMap.txt.gz First 3 columns of soysnp50K_wm82.a2_31417.hmp.txt.gz changes: - 2018-02-28 Changed prefix of marker files from "glysp.mixed" to "glyma.Wm82" to reflect that the variants were called with respect to the Williams82 genome assembly - 2018-02-28 Created MANIFEST files - 2018-02-28 Changed "glysp.mixed.gnm2.div2.Song_Hyten_2015.hmp.txt.gz" to Wm82.gnm2.div2.892R.hmp.gz" - 2018-06-20 Changed formatting of publications in this file - 2020-02-18 Added PI to Common Name conversion table - 2020-09-03 Added Allele count table - 2021-04-27: add genome prefix - 2021-04-27: Change key from 892R to Song_Hyten_2015