Abstract
BackgroundHere, we present an R package for entropy/variability analysis that facilitates prompt and convenient data extraction, manipulation and visualization of protein features from multiple sequence alignments. BALCONY can work with residues dispersed across a protein sequence and map them on the corresponding alignment of homologous protein sequences. Additionally, it provides several entropy and variability scores that indicate the conservation of each residue.ResultsOur package allows the user to visualize evolutionary variability by locating the positions most likely to vary and to assess mutation candidates in protein engineering.ConclusionIn comparison to other R packages BALCONY allows conservation/variability analysis in context of protein structure with linkage of the appropriate metrics with physicochemical features of user choice.Availability: CRAN project page: https://cran.r-project.org/package=BALCONY and our website: http://www.tunnelinggroup.pl/software/ for major platforms: Linux/Unix, Windows and Mac OS X.
Highlights
We present an R package for entropy/variability analysis that facilitates prompt and convenient data extraction, manipulation and visualization of protein features from multiple sequence alignments
We provide an R package that performs the unique analysis of protein evolution that summarises entropy or variability scores in an Multiple sequence alignment (MSA)
A unique feature is the Results and discussion In order to perform full evolutionary analysis coupled with structural data, the input is minimal: an MSA and a plain text file with any structural/physicochemical data provided by the user (Additional file 1: Figure S1)
Summary
In comparison to other R packages BALCONY allows conservation/variability analysis in context of protein structure with linkage of the appropriate metrics with physicochemical features of user choice. Availability: CRAN project page: https://cran.r-project.org/package=BALCONY and our website: http://www. tunnelinggroup.pl/software/ for major platforms: Linux/Unix, Windows and Mac OS X
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