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nf-configs/docs/pipeline/sarek/munin.md

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# nf-core/configs: MUNIN sarek specific configuration
Extra specific configuration for sarek pipeline
## Usage
To use, run the pipeline with `-profile munin`.
This will download and launch the [`munin.config`](../conf/pipeline/sarek/munin.config) which has been pre-configured with a setup suitable for the MUNIN cluster.
Example: `nextflow run nf-core/sarek -profile munin`
## Sarek specific configurations for Munin
Specific configurations for Munin has been made for sarek.
* Path to `snpEff_cache`: `/data1/cache/snpEff/`
* Path to `vep_cache`: `/data1/cache/VEP/`
* Path to `pon`: `/data1/PON/vcfs/BTB.PON.vcf.gz`
* Path to `pon_index`: `/data1/PON/vcfs/BTB.PON.vcf.gz.tbi`
* Load module `Sentieon` for Process with `sentieon` labels