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Question: Question: Can anyone suggest me a bioinformatics pipeline management tools ?

Neel
1759 days ago

Question: Can anyone suggest me a bioinformatics pipeline management tools ?

Hi, I am looking for a bioinformatics pipeline management tools to manage my new bioinfo pipeline. Can anyone at BOL suggest me an easy to use tool. 

Answers
0

There's lots of tools for pipelines in Python. They are sophisticated that helps you decompose an analysis into parts and runs it robustly.

  • Snakemake is my favourite. It's (nearly) pure Python and can generate reports.
  • Nextflow is growing in popularity and is pretty straightforward
  • Ruffus used to be reasonably popular, seemed fine when I used it
  • Bpipe is for bioinformatics
  • Airflow is a more industrial "big" solution but in wide use

    Other useful list of pipelines used in data science are at list of pipeline systems