clusnalyst: Point-and-Click Cluster Analysis of Molecular and Trait Data

A 'shiny' application and a set of plain R functions for clustering samples from dominant markers, SNP genotypes (CSV, VCF or HapMap), quantitative or mixed traits, and DNA or protein sequences. It computes distance matrices, builds trees by UPGMA, WPGMA, single, complete or Ward linkage, neighbour joining or BIONJ, and checks them with marker bootstrap support (Felsenstein 1985 doi:10.1111/j.1558-5646.1985.tb00420.x ), cophenetic correlation, average silhouette width, the gap statistic and Mantel tests. It also offers principal coordinates and principal components, k-means and partitioning around medoids, and exports a self-contained HTML report and an R script that reproduces the analysis.

See also

Useful links:

• https://github.com/ebenogoe/clusnalyst

• https://ebenogoe.github.io/clusnalyst/

• Report bugs at https://github.com/ebenogoe/clusnalyst/issues

Author

Maintainer: Ebenezer Ogoe ebenezerogoe@gmail.com (Co-creator; wrote the 2026 package) [copyright holder]

Authors:

• Michael Obeng (Co-creator of Clusnalyst (2022))

• Stephen Amoako (Co-creator of Clusnalyst (2022))