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Genotyping experiment 2018_WheatCAP


Experiment Short NameWheatCAP
Platformsequence capture
Data ProgramKansas State University - Akhunov Lab (KSA)
Breeding ProgramUC Davis (UCD)
OPA Namenone
Processing Date2018
Software versionnone
CommentsGenotype data from exome capture of all parents of bi-parental families being used for fine mapping of yield component QTL in the Wheat CAP project. Variant calling done using the GATK.

596804 markers were assayed for 12 lines.

(lines and markers)


Removed by filteringRemaining
43670 markers have a minor allele frequency (MAF) less than 5%
270720 markers are missing more than 10% of data
295058 markers removed
301746 markers

Maximum Missing Data: %     Minimum MAF: %    

Additional files available

Samples (germplasm lines)
Manifest (markers used)
Cluster File
Raw dataextra12_exomes.vcf.full_filtered_by_previous70_criteria.vcf

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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