DOI: 10.18129/B9.bioc.HPAStainR  

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

Queries the Human Protein Atlas Staining Data for Multiple Proteins and Genes

Bioconductor version: Release (3.18)

This package is built around the HPAStainR function. The purpose of the HPAStainR function is to query the visual staining data in the Human Protein Atlas to return a table of staining ranked cell types. The function also has multiple arguments to personalize to output as well to include cancer data, csv readable names, modify the confidence levels of the results and more. The other functions exist exclusively to easily acquire the data required to run HPAStainR.

Author: Tim O. Nieuwenhuis [aut, cre]

Maintainer: Tim O. Nieuwenhuis <tnieuwe1 at jhmi.edu>

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


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

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


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


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biocViews GeneExpression, GeneSetEnrichment, Software
Version 1.12.0
In Bioconductor since BioC 3.12 (R-4.0) (3 years)
License Artistic-2.0
Depends R (>= 4.1.0), dplyr, tidyr
Imports utils, stats, scales, stringr, tibble, shiny, data.table
Suggests knitr, BiocManager, qpdf, hpar, testthat, rmarkdown
SystemRequirements 4GB of RAM
BugReports https://github.com/tnieuwe/HPAstainR
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Package Short Url https://bioconductor.org/packages/HPAStainR/
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