Package: terapadog 1.5.0

Gionmattia Carancini

terapadog: Translational Efficiency Regulation Analysis using the PADOG Method

This package performs a Gene Set Analysis with the approach adopted by PADOG on the genes that are reported as translationally regulated (ie. exhibit a significant change in TE) by the DeltaTE package. It can be used on its own to see the impact of translation regulation on gene sets, but it is also integrated as an additional analysis method within ReactomeGSA, where results are further contextualised in terms of pathways and directionality of the change.

Authors:Gionmattia Carancini [cre, aut]

terapadog_1.5.0.tar.gz
terapadog_1.5.0.zip(r-4.7)terapadog_1.5.0.zip(r-4.6)terapadog_1.5.0.zip(r-4.5)
terapadog_1.5.0.tgz(r-4.6-any)terapadog_1.5.0.tgz(r-4.5-any)
terapadog_1.5.0.tar.gz(r-4.7-any)terapadog_1.5.0.tar.gz(r-4.6-any)
terapadog_1.5.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
terapadog/json (API)

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

Bug tracker:https://github.com/gionmattia/terapadog/issues

On BioConductor:terapadog-1.5.0(bioc 3.24)terapadog-1.4.0(bioc 3.23)

riboseqtranscriptomicsgenesetenrichmentgeneregulationreactomesoftware

3.30 score 9 scripts 234 downloads 5 exports 110 dependencies

Last updated from:54d05ead9b. Checks:7 NOTE, 2 OK, 1 WARNING. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE195
linux-devel-x86_64NOTE530
source / vignettesOK260
linux-release-x86_64NOTE572
macos-release-arm64NOTE334
macos-oldrel-arm64NOTE503
windows-develNOTE488
windows-releaseNOTE506
windows-oldrelWARNING553
wasm-releaseOK164

Exports:get_FCsid_converterplotDTAprepareTerapadogDataterapadog

Dependencies:abindAnnotationDbiaskpassbase64encBHBiobaseBiocFileCacheBiocGenericsBiocParallelbiomaRtBiostringsbitbit64blobbslibcachemclicodetoolscpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDESeq2digestdplyrevaluatefarverfastmapfilelockfontawesomeformatRfsfutile.loggerfutile.optionsgenericsGenomicRangesggplot2gluegtablehighrhmshtmltoolshtmlwidgetshttrhttr2IRangesisobandjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclelocfitmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslotelpillarpkgconfigplotlypngprettyunitsprogresspromisespurrrR6rappdirsRColorBrewerRcppRcppArmadillorlangrmarkdownRSQLiteS4ArraysS4VectorsS7sassscalesSeqinfosnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytexutf8vctrsviridisLitewithrxfunxml2XVectoryaml

terapadog: Translational Efficiency Regulation Analysis & Pathway Analysis with Down-weighting of Overlapping Genes

Gionmattia Carancini

Rendered fromterapadog_vignette.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2025-03-05
Started: 2024-11-25