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  T3 Barley Sandbox

Genotyping experiment WBIP384_ABNAM_2012

Description

Experiment Short NameWBIP_384
PlatformVeraCode
Data ProgramUSDA-ARS Raleigh, NC (NCG)
Breeding ProgramUniversity of Minnesota Genomics (UMG)
OPA NameWBIP384
Processing Date11/21/2012
SoftwareIllumina Genome Studio
Software version2010.3
CommentsClustering was performed on a family by family basis. Population was genotyped across 10 assays. ###NOTE### Projected/imputed parental variants from the WBIP_9k_Parents data and from exome capture sequence data for the WBIP population can be obtained by downloading the zip file found here: https://triticeaetoolbox.org/barley/raw/genotype/WBIP_ImputedGenotypes_160422.zip

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384 markers were assayed for 822 lines.
(lines and markers)

Removed by filteringRemaining
24 markers have a minor allele frequency (MAF) less than 5%
8 markers are missing more than 10% of data
29 markers removed
355 markers

Maximum Missing Data: %     Minimum MAF: %    



Additional files available

Samples (germplasm lines)
Manifest (markers used)VC0013453-OPA.opa
Cluster File
Raw data

In 2009 the Toronto International Data Release Workshop agreed on a policy statement about prepublication data sharing. Accordingly, the data producers are making many of the datasets in T3 available prior to publication of a global analysis. Guidelines for appropriate sharing of these data are given in the excerpt from the Toronto Statement

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