Day 1:
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Unix/TACC Introduction and Read Mapping
Day 2: Calling Genome Variants
- Mapped read data evaluation (SAMtools)
- Installing and compiling tools on Unix
- Integrated pipeline for microbial genome re-sequencing analysis (breseq)
- Calling variants in multiploid genomes and mixed populations (FreeBayes)
- Practical advice about some things to watch out for with short read re-sequencing data
- Comparing variants across samples (VCFtools)
Day 3: RNA-seq
Day 4: Assembly
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This is the link to the gsaf web site
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.key454, .keyfixed454 {background-color:yellow;}
.mid454, .midfixed454 {background-color:goldenrod;}
.other454 {background-color:greenyellow;}
.p7 {background-color:0xEBFEBE;}
.fixed454, .keyfixed454, .midfixed454 {font-family:courier,monospace;}
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Rough Draft
All notes/lessons/etc. under bioiteam wiki – next meeting next Thursday May 16th, 11 am.
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