This function computes expression variability in a way that removes dependence on mean expression. It uses a local polynomial likelihood method to estimate variance as gamma distributed around given mean expression for each probeset. This function makes this calculation using all samples in argument. To calculate expression variability for samples in different groups, call this function for each subset of columns separately.
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x |
matrix of gene expression, with one column per sample |
cutoff |
minimum expression value to be included in computation (for |
plot |
make a plot of local likelihood model using |
... |
arguments passed to |
numeric vector of length equal to number of rows of x
Hector Corrada Bravo hcorrada@gmail.com
E. Alemu, H. Corrada Bravo, S. Hannenhalli (2014). Determinants of Expression Variability. Nucleic Acids Research, 42 (6), 3503-14.
frma
for normalization
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