Pathomx is a workflow-based tool for the analysis of metabolomic and other omics datasets. It is interactive, visual, extensible, intelligent, and free for any use. It lets you dynamically build analysis workflows using the interactive editor. Drag and drop connections between plugin tools to create a complete workflow through which to run your analysis. Data can be loaded and processed automatically, and new approaches tested simply by connecting tools.
|Tags||Science Bioinformatics metabolomics Analysis NMR mass spectrometry|
|Operating Systems||Windows Linux (32 and 64 bit) Mac OS X|
|Implementation||Python py2exe Qt 4.7 and newer PySide|
Release Notes: This release adds a new name, Pathomx, reflecting pathway-centered analysis of multi-omics data, interactive figures allowing for zooming and panning through displayed datasets, sidebar panels allowing easier configuration of tool settings with on-the-fly recalculation, and a selection of new tools, including baseline correction and autophasing for NMR spectra.
Release Notes: A completely new drag-drop visual editor was added. It allows you to create analysis workflows by dragging tools into the workspace, editing connections by dragging data lines between tools, and using inline views to get an overview of current processing. Data can be dropped into the workspace for instant import. It also added live per-tool progress notifications, bars, and status indicators. Errors are flagged with help text (tooltips on tools when indicated red).
Release Notes: This version adds a number of important features over the previous release. It has multi-threaded processing, allowing multiple analysis steps to be performed in parallel to speed up your analysis. There is an online plugin repository with a built-in installation and update system. There is Windows 7 & 8 (x64) and Mac OS X support.
Release Notes: An interactive workflow editor allows dynamic creation of analysis workflows from components. Immediate multi-threaded analysis of source data with predictable outputs is provided. A plugin system allows adding and removing of components.
Release Notes: MetaPath is now aware of reaction compartmentalization, as derived from BioCyc protein localization data. You can now visualize reactions with metabolite structure images to see actual molecular changes taking place at each step. Images can also be colored for data analysis purposes. MetaPath now supports GPML natively and can display GPML marked-up pathways within the application. Data visualization is not currently supported (it is present in the underlying gpml2svg code, but needs a bit of work for translating database identifiers).