gravatar for Stefan

2 hours ago by

Berlin

Dear colleagues,

there are several deconvolution algorithms for immune cells out of RNA-seq data, however all of them seem very rigid in their parameter selection. As my data is derived from CD4+ selected cells I wish to run an deconvolution algorithm to deconvolute only subsets of T Cells that are CD4+ positive. All the deconvolution algorithms I have found so far (Algorithms used in TIMER2.0.) do not have any option of selecting a specific subset of immune cells for deconvoluting.

Is anyone of you aware of an algorithm, where one can predefine the immune cell types used for the deconvolution?

I would appreciate any tips or pointers!

Best
Stefan



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