Description Usage Arguments Author(s) References Examples
This is an internal function used to calculate the sorted rank matrix. It is used in the functions: fcros() and pfco().
1 | calcSRmat(xdata, cont, test, log2.opt=0, trim.opt=0.25)
|
xdata |
A matrix or a table containing two biological conditions
dataset to process for detecting differentially expressed
genes: |
cont |
A vector containing the label names of the control samples:
|
test |
A vector containing the label names of the test samples:
|
log2.opt |
A scalar equals to 0 or 1. The value 0 (default) means that
data in the matrix "xdata" are expressed in a log2 scale:
|
trim.opt |
A scalar between 0 and 0.5. The value 0.25 (default) means
that 25% of the lower and the upper rank values of each gene are not
used for computing its statistics "ri", i.e. the interquartile range
rank values are averaged: |
Doulaye Dembele doulaye@igbmc.fr
Dembele D and Kaster P, Fold change rank ordering statistics: a new method for detecting differentially expressed genes, BMC bioinformatics, 2014, 15:14
1 | # data(fdata);
|
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