Gregor Sturm

tcrdist3 might also be significantly faster than what scirpy is doing now. See https://github.com/scverse/scirpy/issues/286#issuecomment-1169430002

The problem is that `IR_VDJ_2_duplicate_count` is of type `str` as it contains `"None"`.

@ausserh, how about adding your code for IEDB to scirpy directly?

Note that the corresponding `group_abundance` then needs to `natsort` the legend. Show an example with `viridis` colorscale. Maybe combine fixing this with #232

Potentially, `clonotype_imbalance` will be made obsolte by `clonotype_modularity`. For now, I marked `clonotype_imbalance` as deprecated with a note asking the user to switch to clonotype modularity, or drop an issue...

https://twitter.com/soph_liu/status/1579913561215639554

Hi @ktpolanski, the main reason why I didn't prioritize the tutorial so far is that the analysis steps don't differ a lot between TCR and BCR... So following the TCR...

We don't have any evidence, what the optional threshold is. For TCR, I would say that anything with a levenshtein distance of >1-2 is unlikely to recognize the same antigen....

In GitLab by @grst on Apr 8, 2020, 15:26 

In GitLab by @grst on Mar 20, 2020, 18:17 changed the description