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PiGx: Pipelines in Genomics

What is PiGx?

PiGx is a collection of genomics pipelines. All pipelines are easily configured with a simple sample sheet and a descriptive settings file. The result is a set of comprehensive, interactive HTML reports with interesting findings about your samples.

DocumentationSample Reports

PiGx includes the following pipelines:

Here are some teaser snapshots taken from the HTML reports:

Example report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshotExample report screenshot

Getting started

To run PiGx on your experimental data you only need to follow these three steps:

That's it! After some time you'll get a bunch of reports that you can view in your browser.

For more detailed information about each of the pipelines see the online documentation.

If you have further questions that are not answered in the documentation, or if you think you found an error in the pipelines, please send email to the user mailing list or use the web forum.

Get it

Pre-built binaries for PiGx are available through GNU Guix, the functional package manager for reproducible, user-controlled software management. Install the complete pipeline bundle with the following command:

guix package -i pigx

PiGx is free software under the GNU General Public License (version 3 or, at your option, any later version). You can get the complete source code here. Your contributions are welcome!

Consider subscribing here to infrequent announcements regarding PiGx, such as release announcements.