INSPEcT

DOI: 10.18129/B9.bioc.INSPEcT  

This is the development version of INSPEcT; for the stable release version, see INSPEcT.

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

Bioconductor version: Development (3.19)

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 "4.4") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("INSPEcT")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF		Reference Manual

Details

biocViews	GeneRegulation, RNASeq, Sequencing, Software, SystemsBiology, TimeCourse
Version	1.33.0
In Bioconductor since	BioC 3.2 (R-3.2) (8 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
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URL
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Imports Me
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Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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