gene names of reference and mixture do not match!

[rmontagn]

Hello,

First I would like to thank you for developping BayesPrism v2.2. It allows me to use large atlases as reference for deconvolution.

However, when I tried to use it, I got an error for some deconvolution tasks:

Error in new.prism(reference = dfRef, mixture = dfBulk, input.type = "count.matrix",  : 
  Error: gene names of reference and mixture do not match!

The error arose when I tried to deconvolve 2 bulk RNA-Seq data and 2 pseudo-bulk RNA-Seq datasets generated by aggregating the reference single cell signal.

While the deconvolution algorithm ran for the bulk RNA-Seq arrays, I can't deconvolve the pseudo-bulk data.

My bulk and reference arguments are dataframes with exactly the same genes as columns and in the same order. So I do not understand what could go wrong.

Do you have any idea ?

Thank a lot

[tinyi]

Dear user, Thank you for your interest in our method. Could you kindly dump your input into an rdata file and share it with me ([email protected]) for troubleshooting? Best, Tinyi

[Pentayouth]

You forgot to transpose the bk.dat I guess. bk.dat should be sample by gene not gene by sample