Test-drive the GATK tools and Best Practices pipelines on Terra
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Oncotator integration with galaxy
i'm working on integrating tools to a galaxy plateform for cancer research, based on whole sequencing data.
Thus a question rise "suddenly". People here are used to perform task with a R script on the distant oncotator site. But this process should be internalized for obvious internal secure reasons.
So my question is : should i integrate all scripts from source (from the oncotator package i mean) in Galaxy or GATK, provided as a galaxy wrapper, has functions that are exactly the same as those included in this Oncotator package (i don't think so, but...) for annotation.
Has anyone tried that before ? Sorry if i ask in the wrong place.
Thanks in advance for your help.