read_cellranger_outs.RdRequired files in each subfolder of vdj_path are consensus_annotations.csv, filtered_contig_annotations.csv, consensus.fasta, concat_ref.fasta, filtered_contig.fasta. If one or more are missing this subfolder is excluded. clonotype_id and consensus_id are suffixed with _cr for cellranger; entries from consensus.fasta becomes consensus_seq_cr. ...
read_cellranger_outs(vdj_path)
| vdj_path | path to the parent folder containing one or multiple subfolders with cellrangers VDJ outs |
|---|
data frame (cl_long)