Package: RNAmodR.RiboMethSeq 1.26.0

Felix G.M. Ernst

RNAmodR.RiboMethSeq: Detection of 2'-O methylations by RiboMethSeq

RNAmodR.RiboMethSeq implements the detection of 2'-O methylations on RNA from experimental data generated with the RiboMethSeq protocol. The package builds on the core functionality of the RNAmodR package to detect specific patterns of the modifications in high throughput sequencing data.

Authors:Felix G.M. Ernst [aut, cre], Denis L.J. Lafontaine [ctb, fnd]

RNAmodR.RiboMethSeq_1.26.0.tar.gz
RNAmodR.RiboMethSeq_1.26.0.zip(r-4.7)RNAmodR.RiboMethSeq_1.26.0.zip(r-4.6)RNAmodR.RiboMethSeq_1.26.0.zip(r-4.5)
RNAmodR.RiboMethSeq_1.26.0.tgz(r-4.6-any)RNAmodR.RiboMethSeq_1.26.0.tgz(r-4.5-any)
RNAmodR.RiboMethSeq_1.26.0.tar.gz(r-4.7-any)RNAmodR.RiboMethSeq_1.26.0.tar.gz(r-4.6-any)
RNAmodR.RiboMethSeq_1.26.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
RNAmodR.RiboMethSeq/json (API)
NEWS

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

Bug tracker:https://github.com/felixernst/rnamodr.ribomethseq/issues

Datasets:
  • msrms - Example data in the RNAmodR.RiboMethSeq package

On BioConductor:RNAmodR.RiboMethSeq-1.27.0(bioc 3.24)RNAmodR.RiboMethSeq-1.26.0(bioc 3.23)

softwareworkflowstepvisualizationsequencingbioconductormodificationsribomethseqrnarnamodr

4.48 score 1 stars 7 scripts 315 downloads 8 exports 153 dependencies

Last updated from:bd74cb45db (on RELEASE_3_23). Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING273
linux-devel-x86_64NOTE562
source / vignettesOK387
linux-release-x86_64NOTE638
macos-release-arm64NOTE326
macos-oldrel-arm64NOTE380
windows-develNOTE795
windows-releaseNOTE713
windows-oldrelNOTE754
wasm-releaseOK231

Exports:aggregateDatafindModgetDataTrackModRiboMethSeqModSetRiboMethSeqplotDataplotDataByCoordsettings<-

Dependencies:abindAnnotationDbiAnnotationFilteraskpassbackportsbase64encBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbiovizBasebitbit64bitopsblobBSgenomebslibcachemcaToolscheckmatecigarillocliclustercodetoolscolorRampscolorspacecpp11crayoncurldata.tableDBIdbplyrDelayedArraydeldirdichromatdigestdplyrensembldbevaluatefarverfastmapfilelockfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegplotsgridExtragtablegtoolsGvizhighrHmischmshtmlTablehtmltoolshtmlwidgetshttrhttr2interpIRangesisobandjpegjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlatticelatticeExtralazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemimeModstringsnnetopensslpillarpkgconfigplyrpngprettyunitsprogressProtGenericspurrrR6rappdirsRColorBrewerRcppRcppEigenRCurlreshape2restfulrRhtslibrjsonrlangrmarkdownRNAmodRROCRrpartRsamtoolsRSQLiterstudioapirtracklayerS4ArraysS4VectorsS7sassscalesSeqinfosnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytextxdbmakerUCSC.utilsutf8VariantAnnotationvctrsviridisLitewithrxfunXMLxml2XVectoryaml

RNAmodR: RiboMethSeq

Felix G.M. Ernst and Denis L.J. Lafontaine

Rendered fromRNAmodR.RiboMethSeq.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2020-01-09
Started: 2019-01-15

Readme and manuals

Help Manual

Help pageTopics
ModRiboMethSeq class to analyze RiboMethSeq dataModRiboMethSeq ModRiboMethSeq-class ModSetRiboMethSeq ModSetRiboMethSeq-class RiboMethSeq
Functions for ModRiboMethSeqaggregate aggregateData,ModRiboMethSeq-method findMod,ModRiboMethSeq-method getDataTrack,ModRiboMethSeq-method modify ModRiboMethSeq-functions plotData plotData,ModRiboMethSeq-method plotData,ModSetRiboMethSeq-method plotDataByCoord plotDataByCoord,ModRiboMethSeq,GRanges-method plotDataByCoord,ModSetRiboMethSeq,GRanges-method settings settings<-,ModRiboMethSeq-method
RNAmodR.RiboMethSeqRNAmodR.RiboMethSeq
Example data in the RNAmodR.RiboMethSeq packagemsrms RNAmodR.RiboMethSeq-datasets