pathfindR (1.3.0)

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Pathway Enrichment Analysis Utilizing Active Subnetworks.

https://github.com/egeulgen/pathfindR
http://cran.r-project.org/web/packages/pathfindR

Pathway enrichment analysis enables researchers to uncover mechanisms underlying the phenotype. pathfindR is a tool for pathway enrichment analysis utilizing active subnetworks. It identifies active subnetworks in a protein-protein interaction network using user-provided a list of genes. It performs pathway enrichment analyses on the identified subnetworks. pathfindR also offers functionalities to cluster enriched pathways and identify representative pathways and to score the pathways per sample. The method is described in detail in Ulgen E, Ozisik O, Sezerman OU. 2018. pathfindR: An R Package for Pathway Enrichment Analysis Utilizing Active Subnetworks. bioRxiv. .

Maintainer: Ege Ulgen
Author(s): Ege Ulgen, Ozan Ozisik

License: MIT + file LICENSE

Uses: DBI, doParallel, foreach, fpc, ggplot2, igraph, knitr, rmarkdown

Released 3 months ago.


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