I have a scRNA-seq dataset, which has 6 patients and each patient has 2 sample types (normal, tumor). So I have 12 folders and each folder contain its scRNA data:
matirx.mtx.tsv.zip. I would like to use this data to practice and learn the
Seurat (version 4.0) r package workflow.
I would like to process all the 12 samples into cluster and downstream analysis. For the preprocessing, I now have no idea which point I should merge all the datasets.
Should I read and QC each folder (e.g patient1-normal -> patient1-tumor -> patient2-normal .... so on), and then merge all data? I am still learning the scRNA seq, I believe each data will have different number of genes and cells, I need to normalize it after merging all the data.
Thank you for your help and advice.