adjclust: Adjacency-Constrained Clustering of a Block-Diagonal Similarity Matrix

Implements a constrained version of hierarchical agglomerative clustering, in which each observation is associated to a position, and only adjacent clusters can be merged. Typical application fields in bioinformatics include Genome-Wide Association Studies or Hi-C data analysis, where the similarity between items is a decreasing function of their genomic distance. Taking advantage of this feature, the implemented algorithm is time and memory efficient. This algorithm is described in Chapter 4 of Alia Dehman (2015) <https://hal.archives-ouvertes.fr/tel-01288568v1>.

Package details

AuthorChristophe Ambroise [aut], Shubham Chaturvedi [aut], Alia Dehman [aut], Michel Koskas [aut], Pierre Neuvial [aut, cre], Guillem Rigaill [aut], Nathalie Vialaneix [aut]
MaintainerPierre Neuvial <[email protected]>
LicenseGPL-3
Version0.5.7
URL https://github.com/pneuvial/adjclust
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:
install.packages("adjclust")

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adjclust documentation built on Sept. 27, 2018, 1:04 a.m.