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

Container for PhIP-Seq Experiments

Bioconductor version: Development (3.20)

PhIPData defines an S4 class for phage-immunoprecipitation sequencing (PhIP-seq) experiments. Buliding upon the RangedSummarizedExperiment class, PhIPData enables users to coordinate metadata with experimental data in analyses. Additionally, PhIPData provides specialized methods to subset and identify beads-only samples, subset objects using virus aliases, and use existing peptide libraries to populate object parameters.

Author: Athena Chen [aut, cre] , Rob Scharpf [aut], Ingo Ruczinski [aut]

Maintainer: Athena Chen <achen70 at>

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


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

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


To view documentation for the version of this package installed in your system, start R and enter:

PhIPData: A Container for PhIP-Seq Experiments HTML R Script
Reference Manual PDF


biocViews Coverage, DataRepresentation, Infrastructure, Sequencing, Software
Version 1.13.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License MIT + file LICENSE
Depends R (>= 4.1.0), SummarizedExperiment(>= 1.3.81)
Imports BiocFileCache, BiocGenerics, methods, GenomicRanges, IRanges, S4Vectors, edgeR, cli, utils
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Suggests BiocStyle, testthat, knitr, rmarkdown, covr, dplyr, readr, withr
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Follow Installation instructions to use this package in your R session.

Source Package PhIPData_1.13.0.tar.gz
Windows Binary
macOS Binary (x86_64) PhIPData_1.13.0.tgz
macOS Binary (arm64) PhIPData_1.13.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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