---
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.AccessionTable.txt.gz
  description: Table containing accession codes and information for the 1007 soybean accessions in the VCF file.
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.AccessionTable.txt.gz
    - Supplemental_Table_1.txt
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.genotypes_by_gene.hmp.gz
  description: Genotypes found in all genes, in hapmap format, with addition of gene name in first column. Derived using HaplotypeMiner
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.genotypes_by_gene.hmp.gz
    - derived using HaplotypeMiner
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.haplotypes_by_gene.tsv.gz
  description: List of haplotype patterns found in all genes. Custom format. Derived using HaplotypeMiner
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.haplotypes_by_gene.tsv.gz
    - derived using HaplotypeMiner
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.loss_of_function.xlsx.gz
  description: Spreadsheet of loss-of-function genotypes for all genes. Derived using HaplotypeMiner
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.loss_of_function.xlsx.gz
    - GmHapMap_LOF_genotypes.xlsx
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.NonSynSNPs.vcf.gz
  description: Original VCF file filtered to only Non-Synonymous SNPs based off the program
    SnpEff (SNPs indicated as having a HIGH or MODERATE effect). This file contains 315,993 SNP positions.
  applications:
    - jbrowse
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.NonSynSNPs.vcf.gz
    - GmHapMap_nsPos.vcf.gz
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.script.py.gz
  description: Script used to convert GmHapMap_GT text file to vcf file.
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.script.py.gz
    - GmHapMapGt-to-vcf.py
- name: glyma.Wm82.gnm2.div.Torkamaneh_Laroche_2019.SNPdata.vcf.gz
  description: Full VCF file for Torkamaneh_Laroche_2019
  applications:
    - jbrowse
  prior_names:
    - glyma.Wm82.gnm2.div.HVCP.SNPData.vcf.gz
    - GmHapMap_GT.gz