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- 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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