CTDquerier

DOI: 10.18129/B9.bioc.CTDquerier    

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

Package for CTDbase data query, visualization and downstream analysis

Bioconductor version: 3.9

Package to retrieve and visualize data from the Comparative Toxicogenomics Database (http://ctdbase.org/). The downloaded data is formated as DataFrames for further downstream analyses.

Author: Carles Hernandez-Ferrer [aut, cre], Jaun R. Gonzalez [aut]

Maintainer: Carles Hernandez-Ferrer <carles.hernandez at isglobal.org>

Installation

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

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

BiocManager::install("CTDquerier")

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("CTDquerier")

 

HTML	R Script	Case study on Environmental Chemicals and asthma-related genes
HTML	R Script	CTDquerier: A package to retrieve CTDbase data for downstream analysis and data visualization
HTML	R Script	Simple comparison between CTDquerier R package and CTDbase Batch Query web tool
PDF		Reference Manual
Text		LICENSE

Details

biocViews	BiomedicalInformatics, DataImport, DataRepresentation, GO, GeneSetEnrichment, Infrastructure, KEGG, Network, NetworkEnrichment, Pathways, Software
Version	1.4.0
In Bioconductor since	BioC 3.7 (R-3.5) (1.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.4.0)
Imports	RCurl, stringr, S4Vectors, stringdist, ggplot2, igraph, utils, grid, gridExtra, methods, stats, BiocFileCache, rappdirs
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	CTDquerier_1.4.0.tar.gz
Windows Binary	CTDquerier_1.4.0.zip
Mac OS X 10.11 (El Capitan)	CTDquerier_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/CTDquerier
Source Repository (Developer Access)	git clone [email protected]:packages/CTDquerier
Package Short Url	https://bioconductor.org/packages/CTDquerier/
Package Downloads Report	Download Stats