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Bioconductor - CTDquerier

CTDquerier

This package is for version 3.10 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see CTDquerier.

Package for CTDbase data query, visualization and downstream analysis

Bioconductor version: 3.10

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>

Citation (from within R, enter citation("CTDquerier")): Installation

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


if (!require("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")
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 HTML R Script Reference Manual PDF LICENSE Text Details biocViews BiomedicalInformatics, DataImport, DataRepresentation, GO, GeneSetEnrichment, Infrastructure, KEGG, Network, NetworkEnrichment, Pathways, Software Version 1.5.0 In Bioconductor since BioC 3.7 (R-3.5) (6 years) License MIT + file LICENSE Depends R (>= 3.4.0) Imports RCurl, stringr, S4Vectors, stringdist, ggplot2, igraph, utils, grid, gridExtra, methods, stats, BiocFileCache, rappdirs System Requirements URL See More Suggests BiocStyle, knitr 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.

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