HERON

DOI: 10.18129/B9.bioc.HERON  

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

Hierarchical Epitope pROtein biNding

Bioconductor version: Development (3.19)

HERON is a software package for analyzing peptide binding array data. In addition to identifying significant binding probes, HERON also provides functions for finding epitopes (string of consecutive peptides within a protein). HERON also calculates significance on the probe, epitope, and protein level by employing meta p-value methods. HERON is designed for obtaining calls on the sample level and calculates fractions of hits for different conditions.

Author: Sean McIlwain [aut, cre] , Irene Ong [aut]

Maintainer: Sean McIlwain <sean.mcilwain at wisc.edu>

Installation

To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("HERON")

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("HERON")

 

HTML	R Script	Analyzing High Density Peptide Array Data using HERON
PDF		Reference Manual
Text		NEWS

Details

biocViews	Coverage, Microarray, Sequencing, Software
Version	1.1.1
In Bioconductor since	BioC 3.18 (R-4.3) (< 6 months)
License	GPL (>= 3)
Depends	R (>= 4.3.0), SummarizedExperiment(>= 1.1.6), GenomicRanges, IRanges, S4Vectors
Imports	matrixStats, stats, data.table, harmonicmeanp, metap, cluster, spdep, Matrix, limma, methods
LinkingTo
Suggests	knitr, rmarkdown, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL	https://github.com/Ong-Research/HERON
BugReports	https://github.com/Ong-Research/HERON/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	HERON_1.1.1.tar.gz
Windows Binary	HERON_1.1.1.zip
macOS Binary (x86_64)	HERON_1.1.1.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/HERON
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HERON
Bioc Package Browser	https://code.bioconductor.org/browse/HERON/
Package Short Url	https://bioconductor.org/packages/HERON/
Package Downloads Report	Download Stats