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Welcome to Bpipe Tests

Bpipe provides a platform for running data analytic workgflows that consist of a series of processing stages - known as 'pipelines'. Bpipe has special features to help with specific challenges in Bioinformatics and computational biology.

Bpipe has been published in Bioinformatics! If you use Bpipe, please cite:

Sadedin S, Pope B & Oshlack A, Bpipe: A Tool for Running and Managing Bioinformatics Pipelines, Bioinformatics

Example

 hello = {
    exec """
        echo "hello world" > $output.txt
    """
 }
 run { hello }

Why Bpipe?

Many people working in data science end up running jobs as custom shell (or similar) scripts. While this makes running them easy it has a lot of limitations. By turning your shell scripts into Bpipe scripts, here are some of the features you can get:

Ready for More?

Take a look at the Overview to see Bpipe in action, work through the Basic Tutorial for simple first steps, see a step by step example of a realistic pipeline made using Bpipe, or take a look at the Reference to see all the documentation.