Can you comment on gene count matrix normalization methods? I see in your publication that the ranking method is 'normalization agnostic' the UCSF website recommend normalization by gene length. I have run xCell on matrices that are TPM and normalized GEX matrix from Deseq2 ( gene length independent ). The latter, was more concordant w/ observations from other platforms. Thanks!
Hello,
Can you comment on gene count matrix normalization methods? I see in your publication that the ranking method is 'normalization agnostic' the UCSF website recommend normalization by gene length. I have run xCell on matrices that are TPM and normalized GEX matrix from Deseq2 ( gene length independent ). The latter, was more concordant w/ observations from other platforms. Thanks!
-Todd