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Bioconductor version: Release (3.18)
'rifiComparative' is a continuation of rifi package. It compares two conditions output of rifi using half-life and mRNA at time 0 segments. As an input for the segmentation, the difference between half-life of both condtions and log2FC of the mRNA at time 0 are used. The package provides segmentation, statistics, summary table, fragments visualization and some additional useful plots for further anaylsis.
Author: Loubna Youssar [aut, cre], Jens cre Georg [aut]
Maintainer: Loubna Youssar <lyoussar at gmail.com>
Citation (from within R,
enter citation("rifiComparative")
):
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("rifiComparative")
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("rifiComparative")
HTML | R Script | rifiComparative |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | DifferentialExpression, GeneRegulation, Microarray, RNASeq, Software, Transcriptomics |
Version | 1.2.0 |
In Bioconductor since | BioC 3.17 (R-4.3) (0.5 years) |
License | GPL-3 + file LICENSE |
Depends | R (>= 4.2) |
Imports | cowplot, doMC, parallel, dplyr, egg, foreach, ggplot2, ggrepel, graphics, grDevices, grid, methods, nnet, rlang, S4Vectors, scales, stats, stringr, tibble, rtracklayer, utils, writexl, DTA, LSD, reshape2, devtools, SummarizedExperiment |
LinkingTo | |
Suggests | DescTools, knitr, rmarkdown, BiocStyle |
SystemRequirements | |
Enhances | |
URL | |
BugReports | https://github.com/CyanolabFreiburg/rifiComparative |
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 | rifiComparative_1.2.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | rifiComparative_1.2.0.tgz |
macOS Binary (arm64) | rifiComparative_1.2.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/rifiComparative |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rifiComparative |
Bioc Package Browser | https://code.bioconductor.org/browse/rifiComparative/ |
Package Short Url | https://bioconductor.org/packages/rifiComparative/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.18 | Source Archive |
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