Site2Target

This is the development version of Site2Target; for the stable release version, see Site2Target.

An R package to associate peaks and target genes

Platform availability badge Ranking badge Support activity badge Years in BioConductor badge Build results badge Last commit badge Dependency count badge

DOI: 10.18129/B9.bioc.Site2Target

Bioconductor version: Development (3.23)

Statistics implemented for both peak-wise and gene-wise associations. In peak-wise associations, the p-value of the target genes of a given set of peaks are calculated. Negative binomial or Poisson distributions can be used for modeling the unweighted peaks targets and log-nromal can be used to model the weighted peaks. In gene-wise associations a table consisting of a set of genes, mapped to specific peaks, is generated using the given rules.

Author: Peyman Zarrineh [cre, aut] ORCID iD ORCID: 0000-0003-4820-4101

Maintainer: Peyman Zarrineh <peyman.zarrineh at manchester.ac.uk>

Citation (from within R, enter citation("Site2Target")):

Installation

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


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("Site2Target")

For older versions of R, please refer to the appropriate Bioconductor release.