Content Comparison

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• General introduction (SPHS)
  • Introduction to Bioinformatics Prezi
• Getting started at TACC
• Linux refresher (SPHS)
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• Using TACC's Lonestar Cluster
  • Diagram of Lonestar's directories
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  • Diagram of running a job on Lonestar
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• Introduction to next-gen sequencing technologies
  • Official Illumina video | Another Illumina video
  • GSAF adaptor and barcode sequence resource
• Application: Example genome variant calling pipeline
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• Evaluating your raw sequencing data (??JB)
• Introduction to Mapping
  • Introduction to mapping presentation (JB)
  • Mapping tutorial (bowtie2, BWA) (JB/GC)
• Integrative Genomics Viewer (IGV) tutorial (JB)
• start diploid mapping (copy from Day 2 content)

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• Introduction to genome variation
• Introduction to variant calling (SAMtools)
• Download presentation on Advanced Genome Variant Calling Barrick_AdvancedGenomeVariantCalling_2012.pdf
• Visualize mapped data at UCSC genome browser
• Calling variants in diploid genomes
• Variant calling with GATK
• Annotating variants (SPHS/DA)Download presentation on Advanced Genome Variant Calling Barrick_AdvancedGenomeVariantCalling_2012.pdf

Enrichment modules (4:30-5:30)

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