Package: raer
Type: Package
Title: RNA editing tools in R
Version: 1.11.1
Authors@R: c(
    person("Kent", "Riemondy", , "kent.riemondy@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-0750-1273")),
    person("Kristen", "Wells-Wrasman", , "kristen.wells-wrasman@cuanschutz.edu", role = "aut",
           comment = c(ORCID = "0000-0002-7466-8164")),
    person("Ryan", "Sheridan", , "ryan.sheridan@cuanschutz.edu", role = "ctb",
           comment = c(ORCID = "0000-0003-4012-3147")),
    person("Jay", "Hesselberth", , "jay.hesselberth@gmail.com", role = "ctb",
           comment = c(ORCID = "0000-0002-6299-179X")),
    person("RNA Bioscience Initiative", role = c("cph", "fnd"))
    )
Description: 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.
License: MIT + file LICENSE
Imports: stats, methods, GenomicRanges, IRanges, Rsamtools, BSgenome,
        Biostrings, SummarizedExperiment, SingleCellExperiment,
        S4Vectors, Seqinfo, GenomeInfoDb, GenomicAlignments,
        GenomicFeatures, BiocGenerics, BiocParallel, rtracklayer,
        Matrix, cli
Suggests: testthat (>= 3.0.0), knitr, DESeq2, edgeR, limma, rmarkdown,
        BiocStyle, ComplexHeatmap, TxDb.Hsapiens.UCSC.hg38.knownGene,
        SNPlocs.Hsapiens.dbSNP144.GRCh38,
        BSgenome.Hsapiens.NCBI.GRCh38, scater, scran, scuttle,
        AnnotationHub, covr, raerdata, txdbmaker
LinkingTo: Rhtslib
SystemRequirements: GNU make
VignetteBuilder: knitr
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
URL: https://rnabioco.github.io/raer, https://github.com/rnabioco/raer
BugReports: https://github.com/rnabioco/raer/issues
biocViews: MultipleComparison, RNASeq, SingleCell, Sequencing,
        Coverage, Epitranscriptomics, FeatureExtraction, Annotation,
        Alignment
Config/Needs/website: pkgdown, rnabioco/rbitemplate
Config/testthat/edition: 3
Config/pak/sysreqs: make libbz2-dev liblzma-dev libpng-dev libxml2-dev
        libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-07 14:35:23 UTC
RemoteUrl: https://github.com/bioc/raer
RemoteRef: HEAD
RemoteSha: 21099f47b112437725e1939bf842ffef6083b164
NeedsCompilation: yes
Packaged: 2026-07-07 18:02:15 UTC; root
Author: Kent Riemondy [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-0750-1273>),
  Kristen Wells-Wrasman [aut] (ORCID:
    <https://orcid.org/0000-0002-7466-8164>),
  Ryan Sheridan [ctb] (ORCID: <https://orcid.org/0000-0003-4012-3147>),
  Jay Hesselberth [ctb] (ORCID: <https://orcid.org/0000-0002-6299-179X>),
  RNA Bioscience Initiative [cph, fnd]
Maintainer: Kent Riemondy <kent.riemondy@gmail.com>