fx_calcDEcombn_BP | R Documentation |
Internal function. See CalcDEcombn
.
fx_calcDEcombn_BP(nge, cl, deMes)
nge |
The log-normalized gene expression matrix. |
cl |
The factor with cluster assignments per cell (column of nge). |
deMes |
The output from |
Calculates Wilcoxon rank-sum tests for all genes in each of the potential combinations of clusters to compare.
Differential testing results from Wilcoxon rank sum tests comparing a
gene in each cluster to that gene in every other cluster in a series of
tests. The results are stored as a nested list of dataframes. Each list
element contains a named list of clusters (cluster A). Each of those lists
contains a named list of all the other clusters (cluster B). Each of those
list elements contains a dataframe of four variables, where each sample is
a gene. dDR
is the difference in detection rate of that gene between
the two clusters (DR[A] - DR[B]). logGER
is the log gene expression
ratio calculated by taking the difference in mean expression of the gene
(see meanLogX
for mean calculation) between the two clusters
(MGE[A] - MGE[B]). Wstat
and pVal
are the test statistic and
the p-value of the Wilcoxon rank sum test. FDR
is the false
discovery rate-corrected p-value of the test.
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