https://github.com/nextflow-io/patterns

A curated collection of Nextflow implementation patterns
https://github.com/nextflow-io/patterns

nextflow

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A curated collection of Nextflow implementation patterns

• Host: GitHub
• URL: https://github.com/nextflow-io/patterns
• Owner: nextflow-io
• License: mit
• Created: 2015-02-05T12:08:52.000Z (almost 10 years ago)
• Default Branch: master
• Last Pushed: 2023-11-21T15:44:47.000Z (about 1 year ago)
• Last Synced: 2023-11-21T16:59:02.303Z (about 1 year ago)
• Topics: nextflow
• Language: Nextflow
• Homepage: http://nextflow-io.github.io/patterns/
• Size: 2.4 MB
• Stars: 304
• Watchers: 23
• Forks: 72
• Open Issues: 9
• Metadata Files:
  • Readme: README.md
  • License: LICENSE.txt

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README

        
# Nextflow Patterns

A curated collection of Nextflow implementation patterns  

![Build Status](https://github.com/nextflow-io/patterns/actions/workflows/test.yml/badge.svg)

## Basic patterns

* [Channel duplication](docs/channel-duplication.md)

* [Sort FilePairs by sample name](docs/sort-filepairs-by-samplename.md)

* [Create key to combine channels](docs/create-key-to-combine-channels.md)

## Scatter executions

* [Process per file path](docs/process-per-file-path.md)

* [Process per file chunk](docs/process-per-file-chunk.md)

* [Process per file pairs](docs/process-per-file-pairs.md)

* [Process per file range](docs/process-per-file-range.md)

* [Process per CSV record](docs/process-per-csv-record.md)

* [Process per file output](docs/process-per-file-output.md)

## Gather results

* [Process all outputs altogether](docs/process-collect.md)

* [Process outputs into groups](docs/process-into-groups.md)

* [Collect outputs into a file](docs/collect-into-file.md)

## Organize outputs

* [Store process outputs](docs/publish-process-outputs.md)

* [Store outputs matching a glob pattern](docs/publish-matching-glob.md)

* [Store outputs renaming files](docs/publish-rename-outputs.md)

## Other

* [Get process work directory](docs/process-get-workdir.md)

* [Ignore failing process](docs/ignore-failing-process.md)

* [State dependency](docs/state-dependency.md)

## Advanced patterns

* [Conditional process resources](docs/conditional-resources.md)

* [Conditional process executions](docs/conditional-process.md)

* [Skip process execution](docs/skip-process-execution.md)

* [Feedback loop](docs/feedback-loop.md)

* [Optional input](docs/optional-input.md)

* [Optional output](docs/optional-output.md)

* [Process when empty](docs/process-when-empty.md)

* [Task batching](docs/task-batching.md)