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RepLoad 10X data #374
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I have the same question! I am following these instructions https://immunarch.com/articles/web_only/load_10x.html#prepare-10x-data and trying to read in the data downloaded from this 10X genomics dataset (seems like a very standard dataset) and the filtered_contig_annotations has the following columns:
Any suggestions? @vadimnazarov |
Hello,
Great package. However, I am running into an issue when loading in my files with RepLoad. Specifically, my files are filtered_contig_annotation.csv files from 10X. However, these are the only headers. I am running into issues as there appears to be a requirement for fwr1,fwr1_nt,cdr1,cdr1_nt,fwr2,fwr2_nt,cdr2,cdr2_nt,fwr3,fwr3_nt column headers. I only have column names for the following:
"barcode" "is_cell" "contig_id" "high_confidence" "length" "chain" "v_gene" "d_gene" "j_gene" "c_gene" "full_length" "productive" "cdr3" "cdr3_nt" "reads" "umis" "raw_clonotype_id" "raw_consensus_id"
Is there a way to read in the data with the data that I have?
Thanks
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