nf-core Runcourse¶
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Kurs Özeti
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nf-core Run is a hands-on introduction to finding, running, and configuring nf-core community pipelines.
Working through practical examples and guided exercises, you will learn to find and retrieve nf-core pipelines, run them using their built-in test profiles, and customize their execution through parameters and configuration files.
You will take away the skills and confidence to start running nf-core pipelines for your own analyses.
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Ek Bilgiler
Teknik Gereksinimler
Bir GitHub hesabına VEYA yerel bir Nextflow kurulumuna ihtiyacınız olacak. Daha fazla ayrıntı için Ortam seçenekleri sayfasına bakın.
Öğrenme Hedefleri
- Find, retrieve, and run nf-core community pipelines
- Configure pipeline execution using parameters and configuration files
- Understand how nf-core pipelines validate parameters and input data
- Run a production-scale pipeline (nf-core/rnaseq) and override its default resource allocations
Hedef Kitle ve Ön Koşullar
- Audience: This course is designed for learners who are new to Nextflow and nf-core and want to run existing community pipelines.
- Skills: Some familiarity with the command line, basic scripting concepts and common file formats is assumed.
- Domain: The exercises use bioinformatics pipelines, but no prior scientific domain knowledge is required.
Course overview¶
This course is hands-on, with goal-oriented exercises structured to introduce information gradually.
You will start with nf-core/demo, a minimal pipeline maintained by the nf-core project for training purposes, then apply what you've learned to nf-core/rnaseq, a widely-used production pipeline for bulk RNA sequencing analysis.
This course focuses on running pipelines. If you're looking for an intro to developing nf-core-compatible pipelines, see Hello nf-core.
Lesson plan¶
| Course chapter | Summary | Estimated duration |
|---|---|---|
| Part 1: Run a demo pipeline | Find and retrieve an nf-core pipeline, run it using its test profile, configure its execution, and run a production pipeline | 60 mins |
By the end of this course, you will be able to take advantage of the wealth of community pipelines offered by the nf-core project.
Ready to take the course?