<div align="center">
<img src="https://raw.githubusercontent.com/yutanagano/tidytcells/main/tidytcells.png" width=700>
<br><br>
[](https://tidytcells.readthedocs.io)
[](https://github.com/yutanagano/tidytcells?tab=MIT-1-ov-file#readme)
[](https://www.frontiersin.org/journals/immunology/articles/10.3389/fimmu.2023.1276106)
### Check out the [documentation page](https://tidytcells.readthedocs.io).
</div>
---
`tidytcells` is a lightweight python package that cleans and standardizes T cell receptor (TR) and Major Histocompatibility (MH) data to be [IMGT](https://www.imgt.org/)-compliant.
The main purpose of the package is to solve the problem of parsing and collating together non-standardized TR datasets.
It is often difficult to compile TR data from multiple sources because the formats/nomenclature of how each dataset encodes TR and MH gene names are slightly different, or even inconsistent within themselves.
`tidytcells` can ameliorate this issue by auto-correcting and auto-standardizing your data.
## Installation
```bash
$ pip install tidytcells
```
## Citing tidytcells
Please cite [our manuscript](https://www.frontiersin.org/journals/immunology/articles/10.3389/fimmu.2023.1276106).
### BibTex
```bibtex
@ARTICLE{10.3389/fimmu.2023.1276106,
AUTHOR={Nagano, Yuta and Chain, Benjamin },
TITLE={tidytcells: standardizer for TR/MH nomenclature},
JOURNAL={Frontiers in Immunology},
VOLUME={14},
YEAR={2023},
URL={https://www.frontiersin.org/journals/immunology/articles/10.3389/fimmu.2023.1276106},
DOI={10.3389/fimmu.2023.1276106},
ISSN={1664-3224}
}
```
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