kpax2

2019-01-01

kpax2 is a R package, written with the purpose of clustering (big) datasets of categorical statistical variables. Main application of kpax2 is with genetic datasets, such as dna/protein multiple sequence alignments. Being a general method, it can be easily applied to any kind of categorical dataset. kpax2 output consists of a classification of both the rows (statistical units) and columns (statistical variables) of the provided data matrix.

Code available on GitHub.

Note: development of this package is discontinued. kpax2 was superseded by Kpax3.jl

bi-clustering cluster-analysis kpax protein-classification
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Alberto Pessia
Postdoctoral researcher

Publications

Pessia, A. (2017). Bayesian cluster analysis with applications to pathogen population genomics. Doctoral dissertation.

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Pessia, A., Grad, Y., Cobey, S., Puranen, J. S., Corander, J. (2015). K-Pax2: Bayesian identification of cluster-defining amino acid positions in large sequence datasets. Microb Genom, 1(1). doi: 10.1099/mgen.0.000025.

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