== What is Nextflow?
Nextflow is a workflow system for creating scalable, portable, and reproducible workflows. It allows you to run your analysis pipeline on a large-scale dataset in a streamlined and parallel manner. Nextflow can deploy workflows on a variety of execution platforms, including your local machine, HPC schedulers, and cloud. Additionally, Nextflow supports a range of compute environments, software container runtimes, and package managers, allowing workflows to be executed in reproducible and isolated environments.


== Why using Nextflow?
The rise of big data has made it increasingly necessary to be able to analyze and perform experiments on large datasets in a portable and reproducible manner. Nextflow has several highlighted features that could be helpful in reproducible and efficient pipeline implementation.

1. Reproducibility
Nextflow supports Docker and Singularity containers technology.

This, along with the integration of the GitHub code sharing platform, allows you to write self-contained pipelines, manage versions and to rapidly reproduce any former configuration.

2. Continuous checkpoints
All the intermediate results produced during the pipeline execution are automatically tracked.

This allows you to resume its execution, from the last successfully executed step, no matter what the reason was for it stopping.

3. Portable
Nextflow can be executed on multiple platforms without changing its codes.

It supports various executors including batch schedulers like SLURM, LSF, PBS, and cloud platforms, such as Kubernetes, Amazon AWS, Google Cloud and Microsoft Azure platforms.


== Installation of Nextflow



== What is nf-core?


== The guidelines for running nf-core pipelines



== Run nf-core pipelines on the slurm cluster


== The recommendations of running individual nf-core pipelines

1. nf-core CUTandRun pipeline

2. nf-core Ribo-seq pipeline

3. nf-core ATAC-seq pipeline