INSPEcT

DOI: 10.18129/B9.bioc.INSPEcT    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see INSPEcT.

Analysis of 4sU-seq and RNA-seq time-course data

Bioconductor version: 3.9

INSPEcT (INference of Synthesis, Processing and dEgradation rates from Transcriptomic data) RNA-seq data in time-course experiments or different conditions, with or without the support of nascent RNA data.

Author: Stefano de Pretis

Maintainer: Stefano de Pretis <ste.depo at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("INSPEcT")

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("INSPEcT")

 

PDF	R Script	INSPEcT
PDF	R Script	RNAdynamics
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneRegulation, RNASeq, Sequencing, Software, SystemsBiology, TimeCourse
Version	1.14.0
In Bioconductor since	BioC 3.2 (R-3.2) (4 years)
License	GPL-2
Depends	R (>= 3.2), methods, Biobase, BiocParallel
Imports	pROC, deSolve, rootSolve, compiler, preprocessCore, GenomicFeatures, GenomicRanges, IRanges, BiocGenerics, GenomicAlignments, Rsamtools, S4Vectors, DESeq2, plgem, SummarizedExperiment, TxDb.Mmusculus.UCSC.mm9.knownGene, shiny
LinkingTo
Suggests	BiocStyle, knitr
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	INSPEcT_1.14.0.tar.gz
Windows Binary	INSPEcT_1.14.0.zip
Mac OS X 10.11 (El Capitan)	INSPEcT_1.14.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/INSPEcT
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/INSPEcT
Package Short Url	https://bioconductor.org/packages/INSPEcT/
Package Downloads Report	Download Stats