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Bioconductor version: Release (3.18)
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.
Author: Kent Riemondy [aut, cre] , Kristen Wells-Wrasman [aut]
, Ryan Sheridan [ctb]
, Jay Hesselberth [ctb]
, RNA Bioscience Initiative [cph, fnd]
Maintainer: Kent Riemondy <kent.riemondy at gmail.com>
Citation (from within R,
enter citation("raer")
):
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("raer")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("raer")
HTML | R Script | Introduction |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | Alignment, Annotation, Coverage, Epitranscriptomics, FeatureExtraction, MultipleComparison, RNASeq, Sequencing, SingleCell, Software |
Version | 1.0.0 |
In Bioconductor since | BioC 3.18 (R-4.3) (< 6 months) |
License | MIT + file LICENSE |
Depends | |
Imports | stats, methods, data.table, GenomicRanges, IRanges, Rsamtools, BSgenome, Biostrings, SummarizedExperiment, SingleCellExperiment, S4Vectors, GenomeInfoDb, GenomicAlignments, GenomicFeatures, BiocGenerics, BiocParallel, rtracklayer, Matrix, R.utils, cli |
LinkingTo | Rhtslib |
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 |
SystemRequirements | GNU make |
Enhances | |
URL | https://rnabioco.github.io/raer https://github.com/rnabioco/raer |
BugReports | https://github.com/rnabioco/raer/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | raer_1.0.0.tar.gz |
Windows Binary | raer_1.0.0.zip |
macOS Binary (x86_64) | raer_1.0.0.tgz |
macOS Binary (arm64) | raer_1.0.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/raer |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/raer |
Bioc Package Browser | https://code.bioconductor.org/browse/raer/ |
Package Short Url | https://bioconductor.org/packages/raer/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.18 | Source Archive |
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