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HERON

Hierarchical Epitope pROtein biNding


Bioconductor version: Release (3.18)

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>

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

Installation

To install this package, start R (version "4.3") and enter:


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

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

Details

biocViews Coverage, Microarray, Sequencing, Software
Version 1.0.0
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
System Requirements
URL https://github.com/Ong-Research/HERON
Bug Reports https://github.com/Ong-Research/HERON/issues
See More
Suggests knitr, rmarkdown, testthat (>= 3.0.0)
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Package Archives

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

Source Package HERON_1.0.0.tar.gz
Windows Binary HERON_1.0.0.zip
macOS Binary (x86_64) HERON_1.0.0.tgz
macOS Binary (arm64) HERON_1.0.0.tgz
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