almeidasilvaf/cageminer: Candidate Gene Miner

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.

Getting started

Package details

Bioconductor views FunctionalGenomics FunctionalPrediction GeneExpression GenomeWideAssociation Network NetworkEnrichment SNP Software VariantAnnotation
Maintainer
LicenseGPL-3
Version0.99.7
URL https://github.com/almeidasilvaf/cageminer
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("almeidasilvaf/cageminer")
almeidasilvaf/cageminer documentation built on Aug. 6, 2021, 4:16 p.m.