A toy dataset containing a single-cell RNA-seq (scRNA-seq) read counts matrix and its grouping information.
counts. A non-negative integer matrix of scRNA-seq raw read counts, rows are genes and columns are cells.
group. A vector of factor specifying the two groups to be compared, corresponding to the columns of the
counts. A matrix of raw read counts of scRNA-seq data which has 200 genes (rows) and 150 cells (columns).
group. A vector of factor specifying the two groups to be compared in
counts. Also could be generated by:
group <- factor(c(rep(1,50), rep(2,100)))
Petropoulos S, et al. Cell, 2016, 165(4): 1012-1026.
DEsingle, for the detection of differentially expressed genes from scRNA-seq data.
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# Load test data for DEsingle data(TestData) # Specifying the two groups to be compared # The sample number in group 1 and group 2 is 50 and 100 respectively group <- factor(c(rep(1,50), rep(2,100))) # Detecting the differentially expressed genes results <- DEsingle(counts = counts, group = group) # Dividing the differentially expressed genes into 3 categories results.classified <- DEtype(results = results, threshold = 0.05)
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