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Interview with Dr. Phelelani T. Mpangase Part I

interview with a bioinformatician who uses a workflow manager in everyday work

Before we proceed with the workflow management using Nextflow, let’s hear from Dr. Phelelani T. Mpangas, bioinformatician who uses this workflow manager in everyday work

Nextflow is free, open-source and can be used on any POSIX compatible system (Linux, OS X, WSL2 etc.)

Nextflow enables scalable and reproducible scientific workflows using software containers. It allows the adaptation of pipelines written in the most common scripting languages.

Whilst Nextflow is one of the most widely used workflow management tools in bioinformatics, it’s important to be aware that there are others like Snakemake which may have less of a learning curve if you’re already familiar with Python.

Initiatives like nf-core provide a community led set of analysis pipelines that allow a large variety of bioinformatics analyses to be performed meaning that users don’t have to write pipelines from scratch.

Do you have any experience in using workflow managers? Do leave your comments in the comments section below, and read to see how experienced the other learners are.

You can hear the second part of this interview towards the end of this week or here.

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Bioinformatics for Biologists: Analysing and Interpreting Genomics Datasets

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