Package: MetaPhOR 1.15.0

Emily Isenhart

MetaPhOR: Metabolic Pathway Analysis of RNA

MetaPhOR was developed to enable users to assess metabolic dysregulation using transcriptomic-level data (RNA-sequencing and Microarray data) and produce publication-quality figures. A list of differentially expressed genes (DEGs), which includes fold change and p value, from DESeq2 or limma, can be used as input, with sample size for MetaPhOR, and will produce a data frame of scores for each KEGG pathway. These scores represent the magnitude and direction of transcriptional change within the pathway, along with estimated p-values.MetaPhOR then uses these scores to visualize metabolic profiles within and between samples through a variety of mechanisms, including: bubble plots, heatmaps, and pathway models.

Authors:Emily Isenhart [aut, cre], Spencer Rosario [aut]

MetaPhOR_1.15.0.tar.gz
MetaPhOR_1.15.0.zip(r-4.7)MetaPhOR_1.15.0.zip(r-4.6)MetaPhOR_1.15.0.zip(r-4.5)
MetaPhOR_1.15.0.tgz(r-4.6-any)MetaPhOR_1.15.0.tgz(r-4.5-any)
MetaPhOR_1.15.0.tar.gz(r-4.7-any)MetaPhOR_1.15.0.tar.gz(r-4.6-any)
MetaPhOR_1.15.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
MetaPhOR/json (API)

# Install 'MetaPhOR' in R:
install.packages('MetaPhOR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:MetaPhOR-1.15.0(bioc 3.24)MetaPhOR-1.14.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

metabolomicsrnaseqpathwaysgeneexpressiondifferentialexpressionkeggsequencingmicroarray

4.00 score 1 scripts 324 downloads 5 exports 162 dependencies

Last updated from:dbe96ea8cd. Checks:1 WARNING, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING204
linux-devel-x86_64OK636
source / vignettesOK762
linux-release-x86_64OK639
macos-release-arm64OK601
macos-oldrel-arm64OK356
windows-develOK532
windows-releaseOK503
windows-oldrelOK570
wasm-releaseOK170

Exports:bubblePlotcytoPathmetaHeatmappathwayAnalysispathwayList

Dependencies:aisdkAnnotationDbiapeaplotaskpassbackportsbase64encbase64urlBiobaseBiocGenericsBiostringsbitbit64bitopsblobbslibcachemcallrcaToolsclasscliclusterclusterProfilercodetoolscpp11crayoncurldata.tableDBIdiagramdigestDOSEdplyre1071enrichitenrichplotevaluateevdfarverfastmapfffontawesomefontBitstreamVerafontLiberationfontquiverfsfuturefuture.applygdtoolsgenericsggforceggfunggiraphggnewscaleggplot2ggplotifyggrepelggtangleggtreeglobalsglueGO.dbGOSemSimgplotsgraphgridGraphicsgsongtablegtoolshighrhtmltoolshtmlwidgetshttrhttr2igraphipredIRangesIRdisplayIRkernelisobandjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglatticelavalazyevallifecyclelistenvmagrittrMASSMatrixmemoisemimenlmennetnumDerivopensslparallellypatchworkpbdZMQpheatmappillarpkgconfigplyrpngpolyclipprocessxprodlimprogressrproxypspurrrqvalueR6rappdirsRColorBrewerRcppRCurlRCy3RecordLinkagereprreshape2RJSONIOrlangrmarkdownrpartRSQLiteS4VectorsS7sassscalesscatterpieSeqinfoshapeSQUAREMstringistringrsurvivalsyssystemfontstibbletidydrtidyrtidyselecttidytreetinytextreeiotweenrutf8uuidvctrsviridisLitewithrxfunXMLxtableXVectoryamlyulab.utils

MetaPhOR

Emily Isenhart

Rendered fromMetaPhOR-vignette.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2022-10-17
Started: 2022-09-13