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- General introduction (SPHS)
- Getting started at TACC
- Linux refresher (SPHS)
- Using TACC's Lonestar Cluster (SPHS)
- Introduction to next-gen sequencing technologies (SPHS)
- Application: Example genome variant calling pipeline (JB)
- Evaluating your raw sequencing data (JB/AB)
- Introduction to Mapping and Tutorial
(JB)- Mapping tutorial (bowtie2, BWA) (JB/GC)
- Integrative Genomics Viewer (IGV) tutorial (Part 1) (JB)
- start diploid mapping (copy from Day 2 content)
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- Introduction to genome variation
- (JB)
- Variant calling tutorial (SAMtools) (JB)
- Integrative Genomics Viewer (IGV) tutorial (Part 2) (JB)
- Visualize mapped data at UCSC genome browser (AB)
- (JB)
- Calling variants in diploid genomes (SPHS)
- Variant calling with GATK (SPHS)
- Annotating variants (SPHS)
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