Combine many RSEM TPM outputs to single matrix
I have nearly 300 RSEM outputs (specifically the TPM values) that I need to combine in a single matrix. I know that RSEM has a "rsem-generate-data-matrix" function to combine RSEM outputs, but I think this only combines expected counts. Further, I would like to maintain the identity of the original sample file name in the matrix if possible so that I know which column belongs to a given sample. Does anyone have any advice?
Please let me know if I can provide any more information to make the question easier to answer.
Thanks!
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abbe.r.clark •
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Perhaps I can change the rsem-generate-data-matrix function (https://github.com/deweylab/RSEM/blob/master/rsem-generate-data-matrix)? I am not familiar with Perl and any advice is appreciated!!