Unix with applications to next generation sequencing data

Course: HT17 Unix with applications to next generation sequencing data (SC00025)

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Some exercises for the course:

• Connecting to the server
• Some basic commands (Tuesday 7th)
• Warm up exercises (Wednesday 13th)
• NGS data quality (Friday 15th from here down)
• Comparing two quantification methods
• Disease causing mutations
• Attempt of murder?

These exercises will cover the following:

• Commands: sed, cut, sort, uniq, comm, wget, grep, find, wc, more
• GUIS: html
• Compressing and packing files
• FOR loops
• Running bioinformatic tools: fastQC, annovar
• Installation of bioionformatics tools: Clustalw2