Package: RNAmodR.AlkAnilineSeq 1.26.0

Felix G.M. Ernst

RNAmodR.AlkAnilineSeq: Detection of m7G, m3C and D modification by AlkAnilineSeq

RNAmodR.AlkAnilineSeq implements the detection of m7G, m3C and D modifications on RNA from experimental data generated with the AlkAnilineSeq 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.AlkAnilineSeq_1.26.0.tar.gz
RNAmodR.AlkAnilineSeq_1.26.0.zip(r-4.7)RNAmodR.AlkAnilineSeq_1.26.0.zip(r-4.6)RNAmodR.AlkAnilineSeq_1.26.0.zip(r-4.5)
RNAmodR.AlkAnilineSeq_1.26.0.tgz(r-4.6-any)RNAmodR.AlkAnilineSeq_1.26.0.tgz(r-4.5-any)
RNAmodR.AlkAnilineSeq_1.26.0.tar.gz(r-4.7-any)RNAmodR.AlkAnilineSeq_1.26.0.tar.gz(r-4.6-any)
RNAmodR.AlkAnilineSeq_1.26.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
RNAmodR.AlkAnilineSeq/json (API)
NEWS

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

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

Datasets:
  • msaas - Example data in the RNAmodR.AlkAnilineSeq package

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

softwareworkflowstepvisualizationsequencingalkanilineseqbioconductormodificationsrnarnamodr

4.78 score 2 stars 6 scripts 346 downloads 8 exports 153 dependencies

Last updated from:9eb70f557f (on RELEASE_3_23). Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING265
linux-devel-x86_64NOTE615
source / vignettesOK446
linux-release-x86_64NOTE610
macos-release-arm64NOTE490
macos-oldrel-arm64NOTE428
windows-develNOTE855
windows-releaseNOTE708
windows-oldrelNOTE757
wasm-releaseOK214

Exports:aggregateDatafindModgetDataTrackModAlkAnilineSeqModSetAlkAnilineSeqplotDataplotDataByCoordsettings<-

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

RNAmodR: AlkAnilineSeq

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

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

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

Readme and manuals

Help Manual

Help pageTopics
ModAlkAnilineSeq class to analyze AlkAnilineSeq dataAlkAnilineSeq ModAlkAnilineSeq ModAlkAnilineSeq-class ModSetAlkAnilineSeq ModSetAlkAnilineSeq-class
Functions for ModAlkAnilineSeqaggregate aggregateData,ModAlkAnilineSeq-method findMod,ModAlkAnilineSeq-method getDataTrack,ModAlkAnilineSeq-method ModAlkAnilineSeq-functions modify plotData plotData,ModAlkAnilineSeq-method plotData,ModSetAlkAnilineSeq-method plotDataByCoord plotDataByCoord,ModAlkAnilineSeq,GRanges-method plotDataByCoord,ModSetAlkAnilineSeq,GRanges-method settings settings<-,ModAlkAnilineSeq-method
RNAmodR.AlkAnilineSeqRNAmodR.AlkAnilineSeq
Example data in the RNAmodR.AlkAnilineSeq packagemsaas RNAmodR.AlkAnilineSeq-datasets