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28 lines
1.1 KiB
Markdown
28 lines
1.1 KiB
Markdown
# nf-core/configs: MUNIN sarek specific configuration
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Extra specific configuration for sarek pipeline
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## Usage
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To use, run the pipeline with `-profile munin`.
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This will download and launch the sarek specific [`munin.config`](../../../conf/pipeline/sarek/munin.config) which has been pre-configured with a setup suitable for the `MUNIN` cluster.
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Example: `nextflow run nf-core/sarek -profile munin`
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## Sarek specific configurations for MUNIN
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Specific configurations for `MUNIN` has been made for sarek.
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- Params `annotation_cache` and `cadd_cache` set to `true`
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- Params `vep_cache_version` set to `95`
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- Path to `snpeff_cache`: `/data1/cache/snpEff/`
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- Path to `vep_cache`: `/data1/cache/VEP/`
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- Path to `pon`: `/data1/PON/vcfs/BTB.PON.vcf.gz`
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- Path to `pon_index`: `/data1/PON/vcfs/BTB.PON.vcf.gz.tbi`
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- Path to `cadd_indels`: `/data1/cache/CADD/v1.4/InDels.tsv.gz`
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- Path to `cadd_indels_tbi`: `/data1/cache/CADD/v1.4/InDels.tsv.gz.tbi`
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- Path to `cadd_wg_snvs`: `/data1/cache/CADD/v1.4/whole_genome_SNVs.tsv.gz`
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- Path to `cadd_wg_snvs_tbi`: `/data1/cache/CADD/v1.4/whole_genome_SNVs.tsv.gz.tbi`
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- Load module `Sentieon` for Processes with `sentieon` labels
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