• Home
• Bioconductor 3.24
• Software Packages
• geneClusterPattern (development version)

geneClusterPattern

This is the development version of geneClusterPattern; to use it, please install the devel version of Bioconductor.

Plot conserved gene pattern across multiple species

DOI: 10.18129/B9.bioc.geneClusterPattern

Bioconductor version: Development (3.24)

An R package for constructing and comparing ortholog gene patterns around a focal gene across species. It enables the exploration of conserved gene neighborhoods (synteny) by organizing orthologous genes within a defined genomic window and aligning their relative positions across multiple genomes. It can retrieve homologous gene directly from Ensembl or it can incorporate user-provided ortholog group assignments.

Author: Jianhong Ou [aut, cre] ORCID: 0000-0002-8652-2488 , Kenneth Poss [aut, fnd]

Maintainer: Jianhong Ou <jou at morgridge.org>

Citation (from within R, enter citation("geneClusterPattern")):

Jianhong Ou, Kenneth Poss. geneClusterPattern: Plot conserved gene pattern across multiple species. doi:10.18129/B9.bioc.geneClusterPattern, R package version 0.99.2, https://bioconductor.org/packages/geneClusterPattern.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("geneClusterPattern")

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("geneClusterPattern")

Details

Package Archives

Follow Installation instructions to use this package in your R session.