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The full GATK team presented this workshop at the Broad Institute with support form the BroadE education program.
This workshop included two modules:
Best Practices for Variant Calling with the GATK
The core steps involved in calling variants with the Broad’s Genome Analysis Toolkit, using the “Best Practices” developed by the GATK team. View the workshop materials to learn why each step is essential to the calling process, what are the key operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset.
Building Analysis Pipelines with Queue
An introduction to the Queue pipelining system. View the workshop materials to learn about how to use Queue to create analysis pipelines, scatter-gather them and run them locally or in parallel on a computing farm.
Geraldine Van der Auwera, PhD