Today’s overview:
Introduce Variant Calling analysis
Learn to install Nextflow
Test and run the nextflow nf-core/sarek pipeline in the HPC cluster using public data. Exercises include:
Running a test to verify the execution of the pipeline
Running the sarek variant calling pipeline with a family trio data
Running the sarek variant calling pipeline with liver samples
Overview of downstream variant calling analysis using R (hands-on session will be on Session 5)
Introduction
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Overview of the Nextflow nf-core/sarek variant calling pipeline
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Exercises:
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