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
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
almeidasilvaf/cageminer documentation built on Aug. 6, 2021, 4:16 p.m.