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Added link to Sarek specific documentation

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SPearce 2022-09-01 13:55:08 +01:00
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README.md
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@ -207,6 +207,7 @@ Currently documentation is available for the following pipelines within specific
- rnavar - rnavar
- [MUNIN](docs/pipeline/rnavar/munin.md) - [MUNIN](docs/pipeline/rnavar/munin.md)
- sarek - sarek
- [Cancer Research UK Manchester Institute](docs/pipeline/sarek/crukmi.md)
- [MUNIN](docs/pipeline/sarek/munin.md) - [MUNIN](docs/pipeline/sarek/munin.md)
- [UPPMAX](docs/pipeline/sarek/uppmax.md) - [UPPMAX](docs/pipeline/sarek/uppmax.md)
- taxprofiler - taxprofiler

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docs/pipeline/sarek/crukmi.md Normal file
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# nf-core/configs: CRUK-MI sarek specific configuration
Extra specific configuration for sarek pipeline
## Usage
To use, run the pipeline with `-profile crukmi`.
This will download and launch the sarek specific [`crukmi.config`](../../../conf/pipeline/sarek/munin.config) which has been pre-configured with a setup suitable for the Cancer Research UK Manchester Institute cluster (phoenix).
Example: `nextflow run nf-core/sarek -profile crukmi`
## Sarek specific configurations for CRUK-MI
Specific configurations for `CRUK-MI` has been made for sarek.
- Initial requested resources for SAMTOOLS_MPILEUP are only 5GB and 1 core.