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ibh (version 1.20.0)

Interaction Based Homogeneity for Evaluating Gene Lists

Description

This package contains methods for calculating Interaction Based Homogeneity to evaluate fitness of gene lists to an interaction network which is useful for evaluation of clustering results and gene list analysis. BioGRID interactions are used in the calculation. The user can also provide their own interactions.

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Version

Version

1.20.0

License

GPL (>= 2)

Maintainer

Kircicegi Korkmaz

Last Published

February 15th, 2017

Functions in ibh (1.20.0)

ibhForMultipleGeneLists

Calculate interaction based homogeneity for multiple gene lists according to the interaction list
ibh

Calculate interaction based homogeneity for the given gene list according to the interaction list
ibh-package

Interaction Based Homogeneity
ibhForMultipleGeneListsBioGRID

Calculate interaction based homogeneity for multiple gene lists according to the BioGRID Interactions
readDirectedInteractionsFromCsv

Read directed interactions from csv and create the interaction list
ibhClusterEval

Evaluate clustering with interaction based homogeneity
readUndirectedInteractionsFromCsv

Read undirected interactions from csv and create the interaction list
findEntry

Find the index of an entry in an interaction list
ibhClusterEvalBioGRID

Evaluate clustering with interaction based homogeneity using BioGRID Interactions
ibhBioGRID

Calculate interaction based homogeneity for a gene list according to the BioGRID Interactions