CLIP sequencing analysis pipeline for QC, pre-mapping, genome mapping, UMI deduplication, and multiple peak-calling options.
Define where the pipeline should find input data and save output data.
Options for the reference genome indices used to align reads.
Define sequencing adapters and UMI options
Define peak callers and peak calling options
Define motif finding parameters
Less common options for the pipeline, typically set in a config file.
Set the top limit for requested resources for any single job.
Parameters used to describe centralised config profiles. These should not be edited.