mixcr-mixcr analyze 10x-sc-xcr-vdj

[whitebird01]

Thank you for the development of the Mixcr software. When I run the 10X single-cell VDJ data using the command:
mixcr analyze 10x-sc-xcr-vdj --species mmu ...
I noticed that the generated default YAML file contains the tag pattern:
--tag-pattern "^(CELL:N{16})(UMI:N{10})\\^(R2:*)"
However, I believe it should be (for 10X V3):
--tag-pattern "^(CELL:N{16})(UMI:N{12})\\^(R2:*)"

 mixcr analyze 10x-sc-xcr-vdj \
     --tag-pattern "^(CELL:N{16})(UMI:N{12})\\^(R2:*)" \
      --species mmu \

I would like to ask if there is any issue with this setting. Thank you very much!

10X V2："^(CELL:N{16})(UMI:N{10})\^(R2:)"
10X V3："^(CELL:N{16})(UMI:N{12})\^(R2:)"

[whitebird01]

mixcr version: 4.7.0,repseqio.v5.1

[mizraelson]

Hi, 10x VDJ library is usually based on v2 chemistry, unless you have some custom solution.

[whitebird01]

Thank you very much for your reply. I understand what you mean, and I have further confirmed the version of the VDJ kit used in the wet experiment. Thanks again!