Introduction

nf-core/pixelator is an analysis pipeline designed for the processing of Proximity Network and Molecular Pixelation data.

The pipeline is built using the Nextflow workflow manager and is developed as part of the nf-core community project.

What is Nextflow

Nextflow is a workflow manager that simplifies the implementation and execution of workflows on cloud platforms or high-performance computing (HPC) infrastructures. It uses a Domain-Specific Language (DSL) to enable the development of scalable and reproducible scientific workflows.

Nextflow supports integration with various software package and environment management systems such as Docker, Singularity, and Conda. It also allows for seamless orchestration of components written in popular scripting languages like R and Python.

Using Nextflow, Pixelgen data can be processed in a reproducible way across a wide range of HPC batch systems, cloud computing platforms, and local computing clusters. The nf-core community maintains a set of ready-made configuration profiles for institutional HPC infrastructures.

The nf-core/pixelator pipeline uses the pixelator command-line application to convert sequencing data into PXL files that are ready for downstream analysis.

What is nf-core

nf-core is a community-driven initiative that provides a curated collection of analysis pipelines built using Nextflow. It offers guidelines, tools, and infrastructure to support the development of best-practice pipelines for the bioinformatics community.

Being part of the nf-core ecosystem ensures that pipelines are well-tested, standardized, and easy to use—especially for users already familiar with other nf-core pipelines.

More information

The latest documentation for the nf-core/pixelator pipeline is available at:
https://nf-co.re/pixelator/

To explore the latest development version of the pipeline, visit:
https://nf-co.re/pixelator/dev