I am trying to perform scrna seq analysis in R using this workflow https://www.singlecellcourse.org/single-cell-rna-seq-analysis-using-seurat.html
I have tried to enter this code, however I do not have the file? Do you know what this file is or how I can create one?
doublets <- read.table("data/update/scrublet_calls.tsv",header = F,row.names = 1) *Error in file(file, "rt") : cannot open the connection In addition: Warning message: In file(file, "rt") : cannot open file 'data/update/scrublet_calls.tsv': No such file or directory*
I think the purpose of this line of code is to add the doublet annotation generated by scrublet to the Seurat object metadata.
I used patient 1 data from this link: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM4952363