The current GATK version is 3.7-0
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Picard 2.10.4 has MAJOR CHANGES that impact throughput of pipelines. Default compression is now 1 instead of 5, and Picard now handles compressed data with the Intel Deflator/Inflator instead of JDK.
GATK version 4.beta.2 (i.e. the second beta release) is out. See the GATK4 BETA page for download and details.

Web-based Oncotator server

Geraldine_VdAuweraGeraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie
edited October 2016 in Oncotator documentation

There is a web-based version of Oncotator which you can use for annotation without running anything on your own machine.

However, please note that the web-based version is an older version, with fewer datasources and many limitations. We urge you to use the downloadable version instead, and at this time we do not provide user support for the web-based version. It is simply provided as-is.

Note also that on rare occasions the server malfunctions and needs to be rebooted. If you experience any server errors (e.g. an error message stating that the server is unavailable), please post a note in the thread below and we'll reboot it as soon as we can.

Post edited by Geraldine_VdAuwera on
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