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Update README.md
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add use conda
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endast committed Oct 20, 2023
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Expand Up @@ -101,7 +101,7 @@ Data for VEP plugins and the CADD cache are stored in `annotation data`.
After configuration and activating the `deeprvat_annotations` environment run the pipeline using snakemake:

```shell
snakemake -j <nr_cores> -s annotations.snakemake --configfile config/deeprvat_annotation.config
snakemake -j <nr_cores> -s annotations.snakemake --configfile config/deeprvat_annotation.config --use-conda
```
## Running the annotation pipeline without the preprocessing pipeline

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