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Updated pipeline config docs for atacseq, chipseq and rnaseq

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lquayle88 2022-09-14 08:46:11 +01:00
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docs/pipeline/atacseq/sbc_sharc.md
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@ -6,6 +6,6 @@ Specific configuration for [nf-co.re/atacseq](https://nf-co.re/atacseq) pipeline
To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen). To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen).
This will download and launch the sarek specific [`sbc_sharc.config`](../../../conf/pipeline/atacseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file. This will download and launch the atacseq specific [`sbc_sharc.config`](../../../conf/pipeline/atacseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file.
Example: `nextflow run nf-core/atacseq -profile sbc_sharc` Example: `nextflow run nf-core/atacseq -profile sbc_sharc`

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docs/pipeline/chipseq/sbc_sharc.md
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@ -6,6 +6,6 @@ Specific configuration for [nf-co.re/chipseq](https://nf-co.re/chipseq) pipeline
To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen). To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen).
This will download and launch the sarek specific [`sbc_sharc.config`](../../../conf/pipeline/chipseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file. This will download and launch the chipseq specific [`sbc_sharc.config`](../../../conf/pipeline/chipseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file.
Example: `nextflow run nf-core/chipseq -profile sbc_sharc` Example: `nextflow run nf-core/chipseq -profile sbc_sharc`

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docs/pipeline/rnaseq/sbc_sharc.md
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@ -6,6 +6,6 @@ Specific configuration for [nf-co.re/rnaseq](https://nf-co.re/rnaseq) pipeline
To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen). To use, run nextflow with the pipeline using `-profile sbc_sharc` (note the single hyphen).
This will download and launch the sarek specific [`sbc_sharc.config`](../../../conf/pipeline/rnaseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file. This will download and launch the rnaseq specific [`sbc_sharc.config`](../../../conf/pipeline/rnaseq/sbc_sharc.config) which has been pre-configured with a setup suitable for the [University of Sheffield ShARC cluster](https://docs.hpc.shef.ac.uk/en/latest/index.html) and will automatically load the appropriate pipeline-specific configuration file.
Example: `nextflow run nf-core/rnaseq -profile sbc_sharc` Example: `nextflow run nf-core/rnaseq -profile sbc_sharc`