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nf-core/configs: fub_curta methylseq specific configuration

Extra specific configuration for methylseq pipeline

Usage

To use, run the pipeline with -profile fub_curta.

This will download and launch the methylseq specific fub_curta.config which has been pre-configured with a setup suitable for the FUB Curta cluster.

Example: nextflow run nf-core/methylseq -profile fub_curta

methylseq specific configurations for fub_curta

Specific configurations for fub_curta has been made for methylseq.

  • The general FUB Curta profile runs with default nf-core/methylseq parameters, but with stageInMode = copy in 'NFCORE_METHYLSEQ:METHYLSEQ:PREPARE_GENOME:BISMARK_GENOMEPREPARATION'. This is due to an error whereby methylseq wouldn't detect the genome with the default stageInMode = symlink (see Slack Thread and #305)