Introduction to RNA-seqRNA-seq quantification: from reads to count matrix
RStudio Project and Experimental Data
Figure 1
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Figure 2
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Figure 3
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Figure 4
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Importing and annotating quantified data into R
Figure 1
Exploratory analysis and quality control
Figure 1
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Figure 2
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Figure 3
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Figure 4
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Figure 5
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Figure 6
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Differential expression analysis
Figure 1
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Figure 2
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Figure 3
Shrinkage of log fold changes is useful for visualization and ranking of
genes, but for result exploration typically the
independentFiltering
argument is used to remove lowly
expressed genes.
Figure 4
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Gene set enrichment analysis
Figure 1
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Figure 2
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Figure 3
Figure 4
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Figure 5
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Figure 6
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Figure 7
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Figure 8
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Figure 9
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Figure 10
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Figure 11
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Figure 12
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Next steps
Extra exploration of design matrices
Figure 1
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Figure 2
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Figure 3
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Figure 4
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Figure 5
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Figure 6
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Figure 7
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Figure 8
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Figure 9
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Figure 10
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