How to bring the reference genome bovine to Usegalaxy for use in GATK, Variant Recalibrator
there are not “bovine” reference genome in Variant Recalibrator.
I bring refseq with UCSC but i think sth is wrong and Variant Recalibrator done with error!
I did it in UCSC as below:
UCSC/genome:Cow/select the assembly then group:Mapping and Sequencing, Track Assembly/ last output format:= “sequence” and get output to Galaxy
Look at “Custom builds” under the User menu
Thanks, can you tell me how i can use this option in usegalaxy?