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  The Triticeae Toolbox

Download Imputed Genotype Data

Genotype Imputation Description
The reference genotype is 2014_HapMap_WEC. The imputation has been done using Beagle 4.0.
The output file contains an Allelic R-squared (AR2) for each marker to give an estimate of the imputation accuracy.
The histogram shows the distribution of AR2 values. The frequency for AR2 = 0 is not shown to make the graph more readable.
The output file is in VCF format and can be filtered to remove markers with low confidence.
The genotype result file can be imported into TASSEL. To download the associated trait, select Traits and Trials and then Download.

Instruction for selecting data
1. Select a Genotype Experiment
2. Select a chromosome
3. Enter an AR2 value for filtering and Download the VCF file

Please select a genotype experiment

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.

I agree to the Data Usage Policy as specified in Toronto Statement.