Package: rifiComparative
Title: 'rifiComparative' compares the output of rifi from two different conditions. 
Version: 1.11.0
Authors@R: c(person("Loubna", "Youssar",
      email = "lyoussar@gmail.com",
      role = c("aut", "cre")),
      person("Jens", "Georg",
      email = "jens.georg@biologie.uni-freiburg.de",
      role = "aut", "cre"))
Description: '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. 
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,
	knitr,
	rmarkdown,
	BiocStyle
VignetteBuilder: knitr	
biocViews: RNASeq, DifferentialExpression, GeneRegulation, Transcriptomics, Microarray, Software
BugReports: https://github.com/CyanolabFreiburg/rifiComparative
License: GPL-3 + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Language: en-US
git_url: https://git.bioconductor.org/packages/rifiComparative
git_branch: devel
git_last_commit: fbe68f4
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
