Kpax3.jl

2019-01-01

Kpax3 is a Julia package for inferring the group structure of genetic sequences. In general, any multivariate categorical dataset (such as presence/absence data) can be analyzed by Kpax3. Output consists of a clustering of both the rows (statistical units) and columns (statistical variables) of the provided data matrix. It is an improved version of kpax2, providing an MCMC algorithm for a proper Bayesian approach and a genetic algorithm for MAP estimation.

Code available on GitHub.

bi-clustering cluster-analysis kpax protein-classification

Alberto Pessia

Postdoctoral researcher

Publications

Pessia, A., Corander, J. (2018). Kpax3: Bayesian bi-clustering of large sequence datasets. Bioinformatics, 34(12): 2132–2133. doi: 10.1093/bioinformatics/bty056.

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

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Talks

Bayesian bi-clustering of categorical data

Cluster analysis is a common statistical technique for partitioning the observed data into disjoint homogeneous groups. In the presence …

2017-07-27 12:10 Helsinki, Finland