Not really an issue. I read the supplementary materials and the quality control metrics are listed in detail. I was wondering where the code is located for the pre-processing of the raw matrix from Cellranger. Is that in the repo? The reason I am asking for this is because I am downloading the h5ad object from the GTEx website and I want to know if the raw UMI counts per cell are located in the adata.raw object (adata is the h5ad object read in using scanpy). Or are these the log normalized UMI counts? Thanks for your help/time.
Not really an issue. I read the supplementary materials and the quality control metrics are listed in detail. I was wondering where the code is located for the pre-processing of the raw matrix from Cellranger. Is that in the repo? The reason I am asking for this is because I am downloading the h5ad object from the GTEx website and I want to know if the raw UMI counts per cell are located in the adata.raw object (adata is the h5ad object read in using scanpy). Or are these the log normalized UMI counts? Thanks for your help/time.