Add-ons

Name Summary Version Links
Orange-Bioinformatics Orange Bioinformatics add-on for Orange data mining software package. 2.5.31 PyPi, Home page,
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Documentation

Orange Bioinformatics extends Orange, a data mining software package, with common functionality for bioinformatics. The provided functionality can be accessed as a Python library or through a visual programming interface (Orange Canvas). The latter is also suitable for non-programmers.

In Orange Canvas the analyst connects basic computational units, called widgets, into data flow analytics schemas. Two units-widgets can be connected if they share a data type. Compared to other popular tools like Taverna, Orange widgets are high-level, integrated potentially complex tasks, but are specific enough to be used independently. Even elaborate analyses rarely consist of more than ten widgets; while tasks such as clustering and enrichment analysis could be executed with up to five widgets. While building the schema each widget is independently controlled with settings, the settings do not conceptually burden the analyst.

Orange Bioinformatics provides access to publicly available data, like GEO data sets, Biomart, GO, KEGG, Atlas, ArrayExpress, and PIPAx database. As for the analytics, there is gene selection, quality control, scoring distances between experiments with multiple factors. All features can be combined with powerful visualization, network exploration and data mining techniques from the Orange data mining framework.

Documentation: http://pythonhosted.org/Orange-Bioinformatics

orangecontrib.earth An implementation of MARS algorithm for Orange. 0.1.3 PyPi, Home page,
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Documentation

orangecontrib.earth provides a an implementation of Multivariate adaptive regression splines (MARS) for the Orange machine learning library. This implementation is based on the C code from R package earth by Stephen Milborrow.

Documentation: http://pythonhosted.org/orangecontrib.earth/

Orange-ModelMaps Orange Model Maps (space of prediction models) add-on for Orange data mining software package. 0.2.8 PyPi, Home page,
Download, Repository,
Documentation

Orange Model Maps is an add-on for Orange data mining software package. It extends Orange by providing modules for building model maps. It also provides widgets for Orange Canvas to enable users explore model maps.

Documentation is found at:

http://orange-modelmaps.readthedocs.org/

Orange-Multitarget Orange Multitarget add-on for Orange data mining software package. 0.9.3 PyPi, Home page,
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Documentation

Orange Multitarget is an add-on for Orange data mining software package. It extends Orange by providing methods that allow for classification of datasets with multiple classes.

Currently supported techniques:

  • Binary Relevance
  • Classifier Chains and Ensemble Classifier Chains
  • Clustering Trees
  • Neural Networks
  • Partial Least Squares

Documentation can be viewed at:

http://orange-multitarget.readthedocs.org/

Orange-Network Orange Network add-on for Orange data mining software package. 0.3.4 PyPi, Home page,
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Documentation

Orange Network is an add-on for Orange data mining software package. It provides network visualization and analysis tools.

Documentation is found at:

http://orange-network.readthedocs.org/

Orange-NMF Orange NMF add-on for Orange data mining software package. 0.1.2 PyPi, Home page,
Download, Repository,
Documentation

Orange NMF is an add-on for Orange data mining software package. It provides non-negative matrix factorization algorithms (NMF) through NIMFA and robust singular value decomposition (rSVD). It includes widgets that deal with missing data in input matrices, their normalizations, viewing and assessing the quality of matrix factors returned by different matrix factorization algorithms.

Documentation is found at:

https://orange-nmf.readthedocs.org

Widgets were designed and implemented by Fajwel Fogel (Ecole Polytechnique ParisTech). All NMF methods call NIMFA library, implemented by Marinka Zitnik (Bioinformatics Laboratory, FRI UL). Thanks also to Doug Marsteller, Stan Young (NISS), Chris Beecher, Paul Fogel.

Orange-Reliability Orange Reliability add-on for Orange data mining software package. 0.2.14 PyPi, Home page,
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Documentation

Orange Reliability is an add-on for Orange data mining software package that enables the estimation of reliabilities for individual predictions.

Documentation: http://pythonhosted.org/Orange-Reliability/

Orange-Text Orange Text Mining add-on for Orange data mining software package. 1.2a1 PyPi, Home page,
Download, Repository,
Documentation

Orange Text Mining is an add-on for Orange data mining software package. It extends Orange by providing common functionality for basic tasks in text mining.

Documentation is found at:

http://orange-text.readthedocs.org/

Orange-Textable Orange Textable add-on for Orange data mining software package. 1.4.2 PyPi, Home page,
Download, Repository,
Documentation

Orange Textable is an add-on for Orange data mining software package. It enables users to build data tables on the basis of text data, by means of a flexible and intuitive interface. Look at the following example to see it in typical action.

Orange Textable offers in particular the following features:

  • text data import from keyboard, files, or urls
  • systematic recoding
  • segmentation and annotation of various text units
  • extract and exploit XML-encoded annotations
  • automatic, random, and arbitrary selection of unit subsets
  • unit context examination using concordance and collocation tables
  • frequency and complexity measures
  • recoded text data and table export

Documentation is found at:

http://orange-textable.readthedocs.org/

Textable was designed and implemented by LangTech Sarl on behalf of the department of language and information sciences (SLI) at the University of Lausanne (see Credits and How to cite Orange Textable).

Working with Add-ons

To install listed add-on through PyPi run:

pip install <add-on name>

For instructions, how to add your add-on to the list, please refer to our Trac wiki.

Windows

For Windows we are providing some installers for Biolab add-ons of latest repository snapshots.

Bioinformatics Add-On
Text Mining Add-On