DOI: 10.18129/B9.bioc.hipathia  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see hipathia.

HiPathia: High-throughput Pathway Analysis

Bioconductor version: 3.17

Hipathia is a method for the computation of signal transduction along signaling pathways from transcriptomic data. The method is based on an iterative algorithm which is able to compute the signal intensity passing through the nodes of a network by taking into account the level of expression of each gene and the intensity of the signal arriving to it. It also provides a new approach to functional analysis allowing to compute the signal arriving to the functions annotated to each pathway.

Author: Marta R. Hidalgo [aut, cre], José Carbonell-Caballero [ctb], Francisco Salavert [ctb], Alicia Amadoz [ctb], Çankut Cubuk [ctb], Joaquin Dopazo [ctb]

Maintainer: Marta R. Hidalgo <marta.hidalgo at outlook.es>

Citation (from within R, enter citation("hipathia")):


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PDF R Script Hipathia Package
PDF   Reference Manual
Text   NEWS


biocViews GO, GeneExpression, GeneSignaling, GraphAndNetwork, Pathways, Software
Version 3.0.2
In Bioconductor since BioC 3.7 (R-3.5) (5.5 years)
License GPL-2
Depends R (>= 4.1), igraph (>= 1.0.1), AnnotationHub(>= 2.6.5), MultiAssayExperiment(>= 1.4.9), SummarizedExperiment(>= 1.8.1)
Imports coin, stats, limma, grDevices, utils, graphics, preprocessCore, servr, DelayedArray, matrixStats, methods, S4Vectors, ggplot2, ggpubr, dplyr, tibble, visNetwork, reshape2, MetBrewer
Suggests BiocStyle, knitr, rmarkdown, testthat
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Source Package hipathia_3.0.2.tar.gz
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Bioc Package Browser https://code.bioconductor.org/browse/hipathia/
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