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Brian Haas edited this page Jun 24, 2018
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Morning: Intro to RNA-Seq and transcriptome analysis
- lecture on intro to rna-seq and the Trinity algorithm for transcript reconstruction
- practicals:
- evaluation of NGS read quality
- in silico normalization of reads
- trinity assembly
Afternoon: Expression Quantitation and Assembly Quality Assessment
- lecture on expression quantitation
- practicals:
- using RSEM and kallisto for expression quantitation
- evaluating transcript assembly quality
Morning: Differential expression analysis
- lecture on differential expression analysis and the importance of statistics
- practicals:
- using edgeR to identify DE transcripts and genes
- transcript clustering
Afternoon: Transcript functional annotation and DE cluster functional enrichment studies
- lecture on transcript functional annotation
- practicals:
- using Trinotate to functionally annotate transcripts and genes
- using goseq to identify functional enrichments of DE clusters