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Day 2: Raw Sequencing data manipulation
- Overview of NGS data processing
- Pre-processing FASTQ sequences
Day 3: Alignment and BAM file manipulation
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- Obtaining public datasets from NCBI (needs some revision)
- Visualize mapped data at UCSC genome browser (needs some revision)
- Shell scripting (needs some revision)
Core NGS Tools -- Resources
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meet 7:45 am Monday – students will start ariving ~8:30. room key – should be automatically opened at 7:30 am name tags – Rayna will provide; pick up from her Friday at Big Data sign in sheet & sign to room – Amelia visit room to check out video hookups, lab computers – Rayna will give us timeFriday 12:45 - 1pm
print cheat sheets – Amelia obtain stampede allocation info from Hans – Anna add attendees credentials to stampede login8 – Anna course artifacts – /corral-repl/utexas/BioITeam/core_ngs_tools – make subdirctories & chmod 777 everything meet 8am Monday web URL: http://web.corral.tacc.utexas.edu/BioITeam, corresponds to /corral-repl/utexas/BioITeam/web
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