circRNAprofiler
circRNAprofiler: An R-Based Computational Framework for the Downstream Analysis of Circular RNAs
Bioconductor version: Release (3.20)
R-based computational framework for a comprehensive in silico analysis of circRNAs. This computational framework allows to combine and analyze circRNAs previously detected by multiple publicly available annotation-based circRNA detection tools. It covers different aspects of circRNAs analysis from differential expression analysis, evolutionary conservation, biogenesis to functional analysis.
Author: Simona Aufiero
Maintainer: Simona Aufiero <simo.aufiero at gmail.com>
citation("circRNAprofiler")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("circRNAprofiler")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("circRNAprofiler")| circRNAprofiler | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, DifferentialExpression, FunctionalPrediction, GenePrediction, GenomeAssembly, Software, StructuralPrediction |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.10 (R-3.6) (5 years) |
| License | GPL-3 |
| Depends | R (>= 4.3.0) |
| Imports | dplyr, magrittr, readr, rtracklayer, stringr, stringi, DESeq2, edgeR, GenomicRanges, IRanges, seqinr, R.utils, reshape2, ggplot2, utils, rlang, S4Vectors, stats, GenomeInfoDb, universalmotif, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19, Biostrings, gwascat, BSgenome |
| System Requirements | |
| URL | https://github.com/Aufiero/circRNAprofiler |
| Bug Reports | https://github.com/Aufiero/circRNAprofiler/issues |
See More
| Suggests | testthat, knitr, roxygen2, rmarkdown, devtools, gridExtra, ggpubr, VennDiagram, BSgenome.Mmusculus.UCSC.mm9, BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm10, BiocManager |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
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| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | circRNAprofiler_1.20.0.tar.gz |
| Windows Binary (x86_64) | circRNAprofiler_1.20.0.zip |
| macOS Binary (x86_64) | circRNAprofiler_1.20.0.tgz |
| macOS Binary (arm64) | circRNAprofiler_1.19.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/circRNAprofiler |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/circRNAprofiler |
| Bioc Package Browser | https://code.bioconductor.org/browse/circRNAprofiler/ |
| Package Short Url | https://bioconductor.org/packages/circRNAprofiler/ |
| Package Downloads Report | Download Stats |