This is the released version of cageminer; for the devel version, see cageminer.
Candidate Gene MinerBioconductor version: Release (3.21)
This package aims to integrate GWAS-derived SNPs and coexpression networks to mine candidate genes associated with a particular phenotype. For that, users must define a set of guide genes, which are known genes involved in the studied phenotype. Additionally, the mined candidates can be given a score that favor candidates that are hubs and/or transcription factors. The scores can then be used to rank and select the top n most promising genes for downstream experiments.
Author: FabrÃcio Almeida-Silva [aut, cre] ORCID: 0000-0002-5314-2964 , Thiago Venancio [aut] ORCID: 0000-0002-2215-8082
Maintainer: FabrÃcio Almeida-Silva <fabricio_almeidasilva at hotmail.com>
Citation (from within R, entercitation("cageminer")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("cageminer")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("cageminer")Follow Installation instructions to use this package in your R session.
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