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abuendia authored Feb 10, 2024
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# arcasHLA: high resolution HLA typing from RNA seq #

arcasHLA performs high resolution genotyping for HLA class I and class II genes from RNA sequencing, supporting both paired and single-end samples.

### Dependencies ###
arcasHLA requires the following utilities:
- [Git Large File Storage](https://github.com/git-lfs/git-lfs/wiki/Installation)
- coreutils

Install and activate the required conda environment `arcas-hla` through the [environment.yml](./environment.yml) file:
`arcasHLA` can be installed through bioconda with
```
conda install arcas-hla -c bioconda -c conda-forge
conda activate arcas-hla
```
**Important**: Please include channels `bioconda` and `conda-forge` as above.

`arcas-hla` can also be installed through the [environment.yml](./environment.yml) file in this repo:
```
conda env create -f environment.yml
conda activate arcas-hla
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