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rhierbaps

Clustering Genetic Sequence Data Using the HierBAPS Algorithm

v1.1.4 · Nov 18, 2022 · MIT + file LICENSE
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Description

Implements the hierarchical Bayesian analysis of populations structure (hierBAPS) algorithm of Cheng et al. (2013) <doi:10.1093/molbev/mst028> for clustering DNA sequences from multiple sequence alignments in FASTA format. The implementation includes improved defaults and plotting capabilities and unlike the original 'MATLAB' version removes singleton SNPs by default.

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CRAN incoming feasibility

Maintainer: ‘Gerry Tonkin-Hill <g.tonkinhill@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
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Package CITATION file contains call(s) to old-style citEntry().  Please
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NOTE r-devel-linux-x86_64-debian-gcc

CRAN incoming feasibility

Maintainer: ‘Gerry Tonkin-Hill <g.tonkinhill@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
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Check History

        

          

            
              NOTE
              
                12 OK ·                 2 NOTE ·                 0 WARNING ·                 0 ERROR ·                 0 FAILURE              
              Mar 9, 2026
            
            

              

                

                  NOTE
                  r-devel-linux-x86_64-debian-clang
                

                
CRAN incoming feasibility

                
Maintainer: ‘Gerry Tonkin-Hill <g.tonkinhill@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

              

              

                

                  NOTE
                  r-devel-linux-x86_64-debian-gcc
                

                
CRAN incoming feasibility

                
Maintainer: ‘Gerry Tonkin-Hill <g.tonkinhill@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

              

            

          

        

      


      

      
      

        
Dependency Network

        

          
            

            
            
            Dependencies
            
            Reverse dependencies

            
            
            
            
            
            

            

            
            
              
              ape
            
            
              
              purrr
            
            
              
              ggplot2
            
            
              
              matrixStats
            
            
              
              patchwork
            

            

            
            
            rhierbaps
          
        

      


      
      

        
Version History

        

          

            new
            1.1.4
            Mar 9, 2026