Genotype Data Download

T3/Wheat

Large protocols
ProtocolGenotype projectdescription
Exome capture HapMap2019 HapMap 337 accessions, 7.5M markers meta data
Exome capture Diversity2019_Diversity 1000 accessions, Passport
Exome capture WatkinsWatkins Core 2017 meta data

Imputed protocols
Method: Practical Haplotype Graph - PHG V2 with 2.9M markers
Visualize: JBrowse
Description: Imputation pipeline and accuracy
ProtocolGenotype projectaccessions
Infinium 90K v2.1 TCAP90K_HWWAMP295
TCAP90K_SpringAM_panel245
TCAP90K_YQV14216
TCAP90K_CSRVAL14116
VRND4_UCD_201576
TCAP90K_NAMparents_panel56
TCAP90K_HWWAMP_SRPN16
TCAP90K_SWWpanel313
TCAP90K_LeafRustPanel335
TCAP90K_SNBWWW266
Infinium 9K v2.1 NSGCwheat9K_4X542
WorldwideDiversityPanel_9K2255
GMS v2.1 2021_GMS288

T3/Oat

Infinium 2010 genotype protocol Infinium 2010 POGI_ALL.vcf
POGI_2015_Aberdeen.vcf
POGI_2015_ENCORE.vcf
POGI_2015_Other.vcf
POGI_2015_SDSU.vcf
POGI_2015_SOAP.vcf
POGI_2015_UCDavis.vcf
POGI_2015_UIL.vcf
POGI_2015_UMN.vcf
POGI_2015_UOPN.vcf
POGI_2015_UWM.vcf

PepsiCo_OT3098_v2_gene_annotations.gff3
PepsiV2.map - map of 123,141 POGI markers to PepsiCo_OT3098_v2
PepsiV2.GFF - haplotypes of 123,141 POGI markers with map

T3/Barley

Morexv3 gene annotations
BRIDG6 GBS 2019 - Full BRIDG6 NAM population, 178GB