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Day 1: Linux and TACC
- Introduction
- Overview NGS data processing
- Getting started at TACCRunning batch jobs at TACC
Day 2: NGS workflow overview and raw sequence pre-processing
- Running batch jobs at TACC
- Finish – Overview NGS data processing
- Start – Pre-processing FASTQ sequences
Day 3: Alignment and BAM file manipulation
Day 4: Post-Alignment Analysis
- SAM format and samtools
- Analysis using BEDTools
- Odds and ends
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