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- Introduction
- Getting started at TACC – logging in
- lecture: NGS overview & technology (2017_05-NGSintro.pdf, part 1)
- Setting up your TACC environment
- File systems and transferring files
Day 2: NGS workflow overview and raw sequence pre-processing
- lecture: FASTQ format (2017_05-NGSintro.pdf, part 2)
- Working with FASTQ files
- lecture: Sequence QC & preparation (2017_05-NGSintro.pdf, part 3)
- PreQC & pre-processing raw sequences
- Running batch jobs at TACC (time permitting)
Day 3: Alignment and BAM file manipulation
- Overview NGS data processing, part 4 lecture: Alignment to a reference (2017_05-NGSintro.pdf, part 4)
- Alignment
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