INSPEcT

DOI: 10.18129/B9.bioc.INSPEcT    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see INSPEcT.

Modeling RNA synthesis, processing and degradation with RNA-seq data

Bioconductor version: 3.12

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

Author: Stefano de Pretis

Maintainer: Stefano de Pretis <ste.depo at gmail.com>, Mattia Furlan <Mattia.Furlan at iit.it>

Installation

To install this package, start R (version "4.0") 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")

 

HTML	R Script	INSPEcT - INference of Synthesis, Processing and dEgradation rates from Transcriptomic data
HTML	R Script	INSPEcT_GUI.html
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneRegulation, RNASeq, Sequencing, Software, SystemsBiology, TimeCourse
Version	1.20.0
In Bioconductor since	BioC 3.2 (R-3.2) (5.5 years)
License	GPL-2
Depends	R (>= 3.6), methods, Biobase, BiocParallel
Imports	pROC, deSolve, rootSolve, KernSmooth, gdata, GenomicFeatures, GenomicRanges, IRanges, BiocGenerics, GenomicAlignments, Rsamtools, S4Vectors, GenomeInfoDb, DESeq2, plgem, rtracklayer, SummarizedExperiment, TxDb.Mmusculus.UCSC.mm9.knownGene, shiny
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
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_1.20.0.tar.gz
Windows Binary	INSPEcT_1.20.0.zip
macOS 10.13 (High Sierra)	INSPEcT_1.20.0.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