DOI: 10.18129/B9.bioc.PhyloProfile    

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


Bioconductor version: Development (3.13)

PhyloProfile is a tool for exploring complex phylogenetic profiles. Phylogenetic profiles, presence/absence patterns of genes over a set of species, are commonly used to trace the functional and evolutionary history of genes across species and time. With PhyloProfile we can enrich regular phylogenetic profiles with further data like sequence/structure similarity, to make phylogenetic profiling more meaningful. Besides the interactive visualisation powered by R-Shiny, the package offers a set of further analysis features to gain insights like the gene age estimation or core gene identification.

Author: Vinh Tran [aut, cre], Bastian Greshake Tzovaras [aut], Ingo Ebersberger [aut], Carla Mölbert [ctb]

Maintainer: Vinh Tran <tran at>

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


To install this package, start R (version "4.1") and enter:

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

# The following initializes usage of Bioc devel


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


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biocViews DataRepresentation, FunctionalPrediction, MultipleComparison, Software, Visualization
Version 1.5.10
In Bioconductor since BioC 3.10 (R-3.6) (1.5 years)
License MIT + file LICENSE
Depends R (>= 4.0.0)
Imports ape, bioDist, BiocStyle, Biostrings, colourpicker, data.table, DT, energy, ExperimentHub, ggplot2, gridExtra, pbapply, RColorBrewer, shiny, shinyBS, shinyjs, OmaDB, plyr, xml2, zoo
Suggests knitr, rmarkdown, testthat
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