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Update OutlineForTopics.md
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idworkin committed Sep 2, 2015
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Expand Up @@ -22,7 +22,7 @@ BE: Identifying and utilizing polymorphism data from Illumina resequencing (and
ID: Introduction to using RNAseq for the analysis of differentially expressed genes

0. Markdown (this probably belongs with R)
1. Transcriptome Assembly using Trinity (ID can do the practical part: Maybe BG for theory?), and how to interpret and use the **de novo* transcriptome assembly.
1. Transcriptome Assembly using Trinity (ID can do the practical part: Maybe BG for theory?), and how to interpret and use the *de novo* transcriptome assembly.
2. Considerations for types of features to use (genes, transcripts, kmers), How to count for RNAseq (what features to use, different approaches to deal with multi-mapped reads)
3. Basic Statistics for the analysis of count data for differential expression
4. Differential expression analysis. Examining data for technical issues. Dealing with multiple comparisons (FDR).
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