October 2019
Intermediate to advanced
316 pages
9h 45m
English
Content preview from R Bioinformatics Cookbook
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How it works...
Power analysis in powsimR requires us to do some pre-analysis so that we have estimates for some important parameters. To perform a simulation-based power analysis, we need to estimate the distribution of log fold changes between treatments and the proportion of features that are differentially expressed.
In step 1, we'll get the mean counts for each feature in the two treatments. After loading the expression data using the readRDS() function, we use the rowMeans() function on certain columns to get the mean expression counts of each gene in both the mock and hrcc1 treatments. We can then get the log2 ratio of those (by simply dividing the two vectors and, in the last line, use standard arithmetical operators to work out those ...
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