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 (3.21)
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>
citation("INSPEcT")):
Installation
To install this package, start R (version "4.5") 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
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("INSPEcT")| INSPEcT - INference of Synthesis, Processing and dEgradation rates from Transcriptomic data | HTML | R Script |
| INSPEcT_GUI.html | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneRegulation, RNASeq, Sequencing, Software, SystemsBiology, TimeCourse |
| Version | 1.37.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (9 years) |
| License | GPL-2 |
| Depends | R (>= 3.6), methods, Biobase, BiocParallel |
| Imports | pROC, deSolve, rootSolve, KernSmooth, readxl, GenomicFeatures, GenomicRanges, IRanges, BiocGenerics, GenomicAlignments, Rsamtools, S4Vectors, GenomeInfoDb, DESeq2, plgem, rtracklayer, SummarizedExperiment, TxDb.Mmusculus.UCSC.mm9.knownGene, shiny |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | INSPEcT_1.37.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |
| Bioc Package Browser | https://code.bioconductor.org/browse/INSPEcT/ |
| Package Short Url | https://bioconductor.org/packages/INSPEcT/ |
| Package Downloads Report | Download Stats |