Hi every one,
If somebody familiar with using the GATK realigner target creator on galaxy?
My data is not supported on galaxy I assume. The tool is giving me two problems;
Sequences are not currently available for the specified build.
A built-in reference genome is not available for the build associated with the selected input file
My data is single read illumina data, BWA mapped to hg19, reordered BAM file with marked duplicates PICARD.
Does anybody have suggestions on what to do next?
Tool name: Realigner Target Creator
Tool version: 0.0.4
Tool ID: toolshed.g2.bx.psu.edu/repos/devteam/realigner_target_creator/gatk_realigner_target_creator/0.0.4
ToolShed URL: https://toolshed.g2.bx.psu.edu/view/devteam/realigner_target_creator