Published April 7, 2021 | Version v2.0
Software Open

Rmomal/EMtree: EMtree v2.0

Authors/Creators

  • 1. IFREMER

Description

In this second version, EMtree was improved and present with new functionalities:

  • Stable handling of big networks (200 to 1000 nodes)
  • Set a random initialisation of the EM weights parameters ("random.init" parameter of main function EMtree())
  • Run stability selection of probability threshold with the StATS function
  • Use a user-provided function for the estimation of the Gaussian covariance matrix in ResampleEMtree ("user_covariance_estimation" parameter)
  • Force some unlinked nodes ("unlinked" parameter)

The overall numerical stability was improved thanks to an adaptative conditioning parameter. The vignette Fatala_Net has been updated, and illustrates the new graphic possibilities among which the storing of a layout and the colouring of edges. Finally, the functions "ComparEMtree()" and "compare_graphs()" were deleted.

Files

Rmomal/EMtree-v2.0.zip

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