Hi

I am basing my question on the data from the package.

plotSamples(sigs_nmf) will plot the contribution of each signature in every sample. The contribution is denoted in terms of RSS value. Is it possible to get the contribution of every/specific signatures in all sample in  terms of percentage?

I mean : a graph or a matrix that holds sample with signatures and the overall percentage of it in that sample. 

Thanks

You can get the plot with contributions expressed in a relative manner, i.e. percents, with

plotSamples(sigs_nmf, normalize = TRUE, percent = TRUE)

The details can be found on the help page of the function: ?plotSamples

The matrix with the contributions for samples and signatures can be obtained with samples(sigs_nmf). Please note that these values are not normalised, but this can quickly be done manually.