DOI: 10.18129/B9.bioc.rifiComparative  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see rifiComparative.

'rifiComparative' compares the outputs of 'rifi' under two different conditions.

Bioconductor version: 3.17

'rifiComparative' is an extension of the 'rifi' package. It is designed to compare the outputs of 'rifi' under two different conditions by utilizing the half-life and mRNA at time 0 segments. To perform the segmentation, it takes into account the difference in half-life between the two conditions and the log2FC (fold change) of the mRNA at time 0. This package offers various functionalities such as segmentation, statistical analysis, summary tables, visualization of fragments, and additional plots that can be helpful for further analysis.

Author: Loubna Youssar [aut, cre], Jens cre Georg [aut]

Maintainer: Loubna Youssar <lyoussar at gmail.com>

Citation (from within R, enter citation("rifiComparative")):


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biocViews DifferentialExpression, GeneRegulation, Microarray, RNASeq, Software, Transcriptomics
Version 1.0.1
In Bioconductor since BioC 3.17 (R-4.3) (< 6 months)
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
Suggests DescTools, devtools, knitr, rmarkdown, BiocStyle
BugReports https://github.com/CyanolabFreiburg/rifiComparative
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