DOI: 10.18129/B9.bioc.bugsigdbr  

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

R-side access to published microbial signatures from BugSigDB

Bioconductor version: Development (3.18)

The bugsigdbr package implements convenient access to bugsigdb.org from within R/Bioconductor. The goal of the package is to facilitate import of BugSigDB data into R/Bioconductor, provide utilities for extracting microbe signatures, and enable export of the extracted signatures to plain text files in standard file formats such as GMT.

Author: Ludwig Geistlinger [aut, cre], Jennifer Wokaty [aut], Levi Waldron [aut]

Maintainer: Ludwig Geistlinger <ludwig_geistlinger at hms.harvard.edu>

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


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



HTML R Script R-side access to BugSigDB
PDF   Reference Manual
Text   NEWS


biocViews DataImport, GeneSetEnrichment, Metagenomics, Microbiome, Software
Version 1.7.2
In Bioconductor since BioC 3.14 (R-4.1) (1.5 years)
License GPL-3
Depends R (>= 4.1)
Imports BiocFileCache, methods, vroom, utils
Suggests BiocStyle, knitr, ontologyIndex, rmarkdown, testthat (>= 3.0.0)
URL https://github.com/waldronlab/bugsigdbr
BugReports https://github.com/waldronlab/bugsigdbr/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 bugsigdbr_1.7.2.tar.gz
Windows Binary bugsigdbr_1.7.2.zip
macOS Binary (x86_64) bugsigdbr_1.7.2.tgz
macOS Binary (arm64) bugsigdbr_1.7.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/bugsigdbr
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/bugsigdbr
Bioc Package Browser https://code.bioconductor.org/browse/bugsigdbr/
Package Short Url https://bioconductor.org/packages/bugsigdbr/
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