A haplotype-led approach to increase the precision of wheat breeding

The data corresponds to the underlying source data for the graphs and figures presented in Brinton et al 2020 A haplotype-led approach to increase the precision of wheat breeding Communications Biology. # Figure 1 ## Fig 1a,b,c,d mace_v_stanley.all_6A_filtered_L20Kb_rq.delta ## Fig 1d,e,f (pink box coordinates) whole_genome_mummer_BLAST_5000000_blocks_combined_updated_ref_coords_10g_corrected_2gap_no_spelta.tsv ## Fig 1f ### heatmaps varieties_6A_identites_cdsbp.tab.gz varieties_6A_identites_0bp.tab.gz varieties_6A_identites_1000bp.tab.gz varieties_6A_identites_2000bp.tab.gz varieties_6A_identites_5000bp.tab.gz ### purple box coordinates chr6A_haplotype_blocks_aln_25_gene_window_drop3.tsv # Figure 2 ## Fig 2a Block_slice500k_stats_Tae_5000kbp.tsv.gz 161010_Chinese_Spring_v1.0_pseudomolecules.fai ## Fig 2b,c blocks_coverage_5000kbp.csv combined_fai.txt 161010_Chinese_Spring_v1.0_pseudomolecules.fai # Figure 3 ## Fig 3a Brinton et al_Supplementary Table 4_Previously_identified_QTL_on_chromosome_6A.xlsx ## Fig 3b Supplementary_Table_2_Sheet1_6A_only.xlsx # Figure 4 ## Fig 4a all.GP08_mm75_het3_publication01142019.vcf.gz_all6A_HCLC_GT_only.GT.FORMAT_position_only.tsv 35k_probe_set_IWGSCv1_chr6A.csv voss_fells_marker_positions_6A.csv pangenome_snp_dist_6A_CS_ref.tsv ## Fig 4b 35K_cerealsdb_hap_examples.csv voss_fells_hap_examples.csv akhunov_hap_examples.csv haplotype_specific_markers_pangenome.csv ## Fig 4c (also in Supplementary Table 7) pangenome_haplotype_allocations_35K_all_AK_USA_capture_vossfells_updated_May2020_FINAL_SET_TO_INCLUDE.csv ## Fig 4d (also in Supplementary Table 9) final_haplotypes_watkins_UKRL.csv ## Fig 4e Extended Data Table 1 (in manuscript)