10k Human PBMCs 5’ v2.0 example

The 10x 10k Human PBMCs, 5’ v2.0 dataset contains multimodal GEX, TCR and BCR data from a single human subject.

Example configuration files (“samples.tsv”, “libraries.tsv” and “pipeline_cellranger.yml”) for processing this dataset are provided in the “examples/10k_pbmc” folder.


Due to a quirk with “cellranger vdj” fastq data for vdj libraries from different flow cells (for the same sample) needs to be presented in different folders. In other words, if fastqs for a vdj sample from different flow cells are presented in the same folder with different “sample” prefix the “cellranger vdj” command fails.

For downstream analysis please see the IFNb example.