Is there a package that can do downstream analysis of single-cell V(D)J sequencing?

Question

[Dan]

Hello,

After running cellranger multi with single-cell VDJ-T sequencing data, I get the cellranger output for each sample. Is there a package that can do downstream analysis of single-cell V(D)J sequencing, like scanpy or seurat for single-cell RNA-seq?

Thanks a lot.

Answer 1

[jv]

One option is Immunarch https://immunarch.com/index.html There is also a dedicated immune repertoire sequencing community forum at http://b-t.cr/ that may be a good resource for you as well

[GenoMax]

Is this useful: https://immcantation.readthedocs.io/en/stable/tutorials/10x_tutorial.html

[Dan]

I will try. Thanks a lot.