Question: GATK Haplotype Caller
gravatar for ecekartal89
3.2 years ago by
ecekartal890 wrote:

Dear Sir,

We want to use Galaxy for our exome data analysis however Galaxy does not include GATK Haplotype Caller. Could you add the GATK Haplotype Caller?

Thank you for your kindly assistance,

Best regards

galaxy gatk • 1.1k views
ADD COMMENTlink modified 3.1 years ago by Jennifer Hillman Jackson25k • written 3.2 years ago by ecekartal890
gravatar for Jennifer Hillman Jackson
3.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:


The core development team will not be updating the GATK tools going forward - but the community might. Trello would be a good place to put the request. Here is how:

Best, Jen, Galaxy team


ADD COMMENTlink written 3.1 years ago by Jennifer Hillman Jackson25k

Can I ask why, out of curiosity? Is there a different SNP calling tool considered the standard in Galaxy (e.g., samtools)?

ADD REPLYlink written 2.6 years ago by vladimir.gritsenko90
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