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Getting Started with Pathomx

This is quick start-up guide for new users of Pathomx. Following it should give you everything that you need to know to start using Pathomx right away. Once you've been through the basics you might like to see some of the demos to see what Pathomx is capable of.

Gremlins in the Machine

Pathomx is a workflow-based data analysis tool built on IPython. It began as a metabolomic-analysis toolkit, but has extended to support general data analysis workflows. It aims to be simple to use for non-experts while powerful enough for complex analysis tasks. Key to both of these goals is the ability to create 'custom tools' that can be drag-dropped together to form larger workflows.

mplstyler StylesManager demo

Now we've got the classes for the data plotted, we can now plot the mean values (of the spectra). To get a style assignment for a given class we need to call .get_style_for_class() on the styles manager. This returns a useable style object that can output the keyword arguments needed to correctly style matplotlib plots.