raer
RNA editing tools in R
Bioconductor version: 3.23 · Package version: 1.10.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("raer") Details
| Maintainer | Kent Riemondy <kent.riemondy@gmail.com> |
| 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] |
| License | MIT + file LICENSE |
| URL | https://rnabioco.github.io/raer, https://github.com/rnabioco/raer |
| Bug Reports | https://github.com/rnabioco/raer/issues |
| System Requirements | GNU make |
| Downloads rank | 257 |
| Source branch | RELEASE_3_23 |
| biocViews | Alignment, Annotation, Coverage, Epitranscriptomics, FeatureExtraction, MultipleComparison, RNASeq, Sequencing, SingleCell, Software |
Documentation
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Dependencies
Imports: stats, methods, GenomicRanges, IRanges, Rsamtools, BSgenome, Biostrings, SummarizedExperiment, SingleCellExperiment, S4Vectors, Seqinfo, GenomeInfoDb, GenomicAlignments, GenomicFeatures, BiocGenerics, BiocParallel, rtracklayer, Matrix, 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, txdbmaker