MetaboSignal: MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways

MetaboSignal is an R package that allows merging, analyzing and customizing metabolic and signaling KEGG pathways. It is a network-based approach designed to explore the topological relationship between genes (signaling- or enzymatic-genes) and metabolites, representing a powerful tool to investigate the genetic landscape and regulatory networks of metabolic phenotypes.

AuthorAndrea Rodriguez-Martinez <andrea.rodriguez-martinez13@imperial.ac.uk>, Rafael Ayala <r.ayala14@imperial.ac.uk>, Joram M. Posma <j.posma11@imperial.ac.uk>, Ana L. Neves <ana.luisa.neves14@imperial.ac.uk>, Marc-Emmanuel Dumas <m.dumas@imperial.ac.uk>
Date of publicationNone
MaintainerAndrea Rodriguez-Martinez <andrea.rodriguez-martinez13@imperial.ac.uk>, Rafael Ayala <r.ayala14@imperial.ac.uk>
LicenseGPL-3
Version1.4.0

View on Bioconductor

Functions

directionality_reactions Man page
hpaNormalTissue Man page
MetaboSignal_distances Man page
MetaboSignal_matrix Man page
MetaboSignal_NetworkCytoscape Man page
MetaboSignal_table Man page
MetaboSignal_tableUnfiltered Man page
MS_ChangeNames Man page
MS_FilterNetwork Man page
MS_FindKEGG Man page
MS_FindMappedNodes Man page
MS_GetKEGG_GeneID Man page
MS_GetShortestpaths Man page
MS_NodeBW Man page
MS_RemoveNode Man page
MS_ReplaceNode Man page
MS_ToCytoscape Man page
neglected_genes Man page
subnetwork Man page

Files

MetaboSignal/DESCRIPTION
MetaboSignal/MetaboSignal.Rproj
MetaboSignal/NAMESPACE
MetaboSignal/NEWS
MetaboSignal/R
MetaboSignal/R/Find_support_Functions.R MetaboSignal/R/MetaboSignal_NetworkCytoscape.R MetaboSignal/R/MetaboSignal_distances.R MetaboSignal/R/MetaboSignal_matrix.R MetaboSignal/R/Other_support_Functions.R MetaboSignal/R/general_internal_functions.R MetaboSignal/R/metabolic_matrix.R MetaboSignal/R/signaling_matrix.R
MetaboSignal/README.md
MetaboSignal/build
MetaboSignal/build/vignette.rds
MetaboSignal/data
MetaboSignal/data/MetaboSignal_table.rda
MetaboSignal/data/MetaboSignal_tableUnfiltered.rda
MetaboSignal/data/directionality_reactions.rda
MetaboSignal/data/hpaNormalTissue.rda
MetaboSignal/data/neglected_genes.rda
MetaboSignal/data/subnetwork.rda
MetaboSignal/inst
MetaboSignal/inst/doc
MetaboSignal/inst/doc/MetaboSignal.R
MetaboSignal/inst/doc/MetaboSignal.Rmd
MetaboSignal/inst/doc/MetaboSignal.html
MetaboSignal/inst/unitTests
MetaboSignal/inst/unitTests/test_MetaboSignal.R
MetaboSignal/man
MetaboSignal/man/MS_ChangeNames.Rd MetaboSignal/man/MS_FilterNetwork.Rd MetaboSignal/man/MS_FindKEGG.Rd MetaboSignal/man/MS_FindMappedNodes.Rd MetaboSignal/man/MS_GetKEGG_GeneID.Rd MetaboSignal/man/MS_GetShortestpaths.Rd MetaboSignal/man/MS_NodeBW.Rd MetaboSignal/man/MS_RemoveNode.Rd MetaboSignal/man/MS_ReplaceNode.Rd MetaboSignal/man/MS_ToCytoscape.Rd MetaboSignal/man/MetaboSignal_NetworkCytoscape.Rd MetaboSignal/man/MetaboSignal_distances.Rd MetaboSignal/man/MetaboSignal_matrix.Rd MetaboSignal/man/MetaboSignal_table.Rd MetaboSignal/man/MetaboSignal_tableUnfiltered.Rd MetaboSignal/man/directionality_reactions.Rd MetaboSignal/man/hpaNormalTissue.Rd MetaboSignal/man/neglected_genes.Rd MetaboSignal/man/subnetwork.Rd
MetaboSignal/tests
MetaboSignal/tests/runTests.R
MetaboSignal/vignettes
MetaboSignal/vignettes/MetaboSignal.Rmd
MetaboSignal/vignettes/figures
MetaboSignal/vignettes/figures/network.jpg
MetaboSignal/vignettes/knitcitations.bib
MetaboSignal/vignettes/mystyle.css
MetaboSignal/vignettes/template.csl

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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