Nextflow pipeline for running any segmentation model at scale.
Note
For full details, see our central documentation.
To get the arguments for the pipeline with a description for each, run the following command:
nextflow run FrancisCrickInstitute/Segment-Flow --help
Important
Pin a release tag with -r for any run you may need to reproduce:
nextflow run FrancisCrickInstitute/Segment-Flow -r v0.1 [options]
Without -r, Nextflow resolves the tip of master, which moves as the pipeline
develops. Available tags are listed
here.