Genevera Allen
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Major Software Packages:

  • MoNet: Markov Network Toolbox for Functional Connectivity (alpha-version).

    • Software for estimating functional brain connectivity networks (Markov Networks) from resting-state fMRI data and conducting population inference for assocaitions with network differences.

    • Authors: Manjari Narayan, Genevera I. Allen, Steffie Tomson.

Markov Network Toolbox for Functional Connectivity.



  • XMRF (coming soon!)

    • Software to fit Markov Networks to different types of data, encoding the methods for Markov Networks specified via node-conditional univariate exponential family distributions. XMRF supports Gaussian graphical models, Ising models, and four variants of Poisson-family graphical models.

    • Online manual.

    • Authors: Ying-Wooi Wan, Genevera I. Allen, Yulia Baker, Eunho Yang, Pradeep Ravikumar, Zhandong Liu.


XMRF: Lung Cancer Gene Expression Network.


  • TCGA2STAT (coming soon!)

    • Software to automatically download and process TCGA data into a format ready for integrated statistical analyses in R.

    • Online manual.

    • Authors: Ying-Wooi Wan, Genevera I. Allen, Zhandong Liu.




Other Software: