DOI: 10.18129/B9.bioc.pfamAnalyzeR  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see pfamAnalyzeR.

Identification of domain isotypes in pfam data

Bioconductor version: 3.17

Protein domains is one of the most import annoation of proteins we have with the Pfam database/tool being (by far) the most used tool. This R package enables the user to read the pfam prediction from both webserver and stand-alone runs into R. We have recently shown most human protein domains exist as multiple distinct variants termed domain isotypes. Different domain isotypes are used in a cell, tissue, and disease-specific manner. Accordingly, we find that domain isotypes, compared to each other, modulate, or abolish the functionality of a protein domain. This R package enables the identification and classification of such domain isotypes from Pfam data.

Author: Kristoffer Vitting-Seerup [cre, aut]

Maintainer: Kristoffer Vitting-Seerup <k.vitting.seerup at>

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


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.


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



HTML R Script pfamAnalyzeR
PDF   Reference Manual
Text   NEWS


biocViews AlternativeSplicing, Annotation, BiomedicalInformatics, DataImport, FunctionalGenomics, FunctionalPrediction, GenePrediction, Software, SystemsBiology, TranscriptomeVariant
Version 1.0.1
In Bioconductor since BioC 3.17 (R-4.3) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.3.0), readr, stringr, dplyr
Imports utils, tibble, magrittr
Suggests BiocStyle, knitr, rmarkdown
Depends On Me IsoformSwitchAnalyzeR
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package pfamAnalyzeR_1.0.1.tar.gz
Windows Binary
macOS Binary (x86_64) pfamAnalyzeR_1.0.1.tgz
macOS Binary (arm64) pfamAnalyzeR_1.0.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: