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!