Package: raer 1.11.0

Kent Riemondy

raer: RNA editing tools in R

Toolkit for identification and statistical testing of RNA editing signals from within R. Provides support for identifying sites from bulk-RNA and single cell RNA-seq datasets, and general methods for extraction of allelic read counts from alignment files. Facilitates annotation and exploratory analysis of editing signals using Bioconductor packages and resources.

Authors:Kent Riemondy [aut, cre], Kristen Wells-Wrasman [aut], Ryan Sheridan [ctb], Jay Hesselberth [ctb], RNA Bioscience Initiative [cph, fnd]

raer_1.11.0.tar.gz
raer_1.11.0.zip(r-4.7)raer_1.11.0.zip(r-4.6)raer_1.11.0.zip(r-4.5)
raer_1.11.0.tgz(r-4.6-x86_64)raer_1.11.0.tgz(r-4.6-arm64)raer_1.11.0.tgz(r-4.5-x86_64)raer_1.11.0.tgz(r-4.5-arm64)
raer_1.11.0.tar.gz(r-4.7-arm64)raer_1.11.0.tar.gz(r-4.7-x86_64)raer_1.11.0.tar.gz(r-4.6-arm64)raer_1.11.0.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
card.svg |card.png
raer/json (API)
NEWS

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

Bug tracker:https://github.com/rnabioco/raer/issues

Pkgdown/docs site:https://rnabioco.github.io

Uses libs:
  • curl– Easy-to-use client-side URL transfer library
  • bzip2– High-quality block-sorting file compressor library
  • xz-utils– XZ-format compression library
  • zlib– Compression library

On BioConductor:raer-1.11.0(bioc 3.24)raer-1.10.0(bioc 3.23)

multiplecomparisonrnaseqsinglecellsequencingcoverageepitranscriptomicsfeatureextractionannotationalignmentbioconductor-packagerna-seq-analysissingle-cell-analysissingle-cell-rna-seqcurlbzip2xz-utilszlib

5.78 score 10 stars 6 scripts 334 downloads 23 exports 71 dependencies

Last updated from:ef8b9a80ae. Checks:1 NOTE, 11 WARNING, 1 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE392
linux-devel-arm64WARNING566
linux-devel-x86_64WARNING676
source / vignettesOK781
linux-release-arm64WARNING569
linux-release-x86_64WARNING683
macos-release-arm64WARNING366
macos-release-x86_64WARNING1358
macos-oldrel-arm64WARNING501
macos-oldrel-x86_64WARNING637
windows-develWARNING701
windows-releaseWARNING590
windows-oldrelWARNING657
wasm-releaseFAIL360

Exports:annot_from_grannot_snpscalc_AEIcalc_confidencecalc_edit_frequencycalc_scAEIcorrect_strandfilter_clustered_variantsfilter_multiallelicfilter_splice_variantsFilterParamfind_de_sitesfind_mispriming_sitesfind_scde_sitesget_overlapping_snpsget_scAEI_sitesget_splice_sitesmake_de_objectmock_rsepileup_cellspileup_sitesraer_exampleread_sparray

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomecachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesgluehttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigpngR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsSeqinfoSingleCellExperimentsnowSparseArraySummarizedExperimentsysUCSC.utilsvctrsXMLXVectoryaml

Introducing the raer package

Kent Riemondy, Kristen Wells-Wrasman, Jay Hesselberth

Rendered fromraer.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2025-07-14
Started: 2022-05-02