-
The current AIRR schema contains two `germline_database` keys, one in the `Alignment` another one in the `Rearrangement` object. However, this create a lot of redundancy, as usually all the `Rearrange…
-
In GitLab by @grst on Jan 30, 2020, 12:59
Tools are functions that work with the data parsed from 10x/tracer and add either
* new columns to `obs`
* new matrices to `obsm` (e.g. distance matrice…
-
Good Morning Everyone,
We have received data from a collaborator who needs help to analyze the TCR repertoire of some samples. This data comes from iRepertoire. The files where the reads are have ".…
-
Hello,
I am trying to reproduce the result of IMonitor using the data provided in the tool. I have this error and I think it is due by the fact that I cannot make proper plots (mostyl because the…
-
The original issue
Id: 9
Title: List of plots
could not be created.
This is a dummy issue, replacing the original one. It contains everything but the original issue description. In case the gitlab…
-
We are starting to look at paired sequencing data and I am starting to wonder how one determines uniqueness of a pair of sequences. This is related to #246 but I thought it worthy of a separate discus…
-
Creating an explicit issue around repertoire_id and rearrangement_set_id to capture the discussion around their mapping as discussed here (https://github.com/airr-community/airr-standards/issues/144#i…
-
TCRb of CD4 and CD8 T-cells specific for Allo, CMV or BKV
[dziubianau_et_al_2013_tcr_repertoire_analysis_by_next_generation_sequencing_allows_complex.pdf](https://github.com/antigenomics/vdjdb-db/fil…
-
I am working on the non-human sample, i.e. pig RNASeq data to get its TCR repertoire characterized. For this, I am using a docker version of mixcr.
`docker run -it --rm -v $PWD:/output -w /outpu…
-
Hi, thanks for sharing your package!
I found an error when parsing Immunoseq files. The header doesn't match my files, so I had to fix it by changing:
```
reads