Package: adjclust
Maintainer: Pierre Neuvial <pierre.neuvial@math.univ-toulouse.fr>
Authors@R: c(person("Christophe", "Ambroise", role = "aut"),
             person("Shubham", "Chaturvedi", role = "aut"),
             person("Alia", "Dehman", role = "aut"),
             person("Pierre", "Neuvial", role = c("aut", "cre"), 
                    email = "pierre.neuvial@math.univ-toulouse.fr",
		    comment = c(ORCID = "0000-0003-3584-9998")),	
             person("Guillem", "Rigaill", role = "aut"),
             person("Nathalie", "Vialaneix", role = "aut", 
                    email = "nathalie.vialaneix@inrae.fr",
		    comment = c(ORCID = "0000-0003-1156-0639")),
             person("Gabriel", "Hoffman", role = "aut"))
Date: 2025-11-19
Version: 0.6.11
License: GPL-3
Title: Adjacency-Constrained Clustering of a Block-Diagonal Similarity
        Matrix
Description: 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 Ambroise et al (2019)
        <doi:10.1186/s13015-019-0157-4>.
Depends: R (>= 4.0.0)
Imports: stats, graphics, grDevices, Rcpp (>= 1.0.6), Matrix,
        sparseMatrixStats, methods, utils, capushe, ggplot2,
        dendextend, rlang
Suggests: knitr, testthat, rmarkdown, rioja, HiTC, snpStats,
        BiocGenerics
biocViews: Clustering, FeatureExtraction
VignetteBuilder: knitr
URL: https://pneuvial.github.io/adjclust/
BugReports: https://github.com/pneuvial/adjclust/issues
RoxygenNote: 7.3.2
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
Language: en-US
Repository: https://pneuvial.r-universe.dev
Date/Publication: 2025-11-19 21:34:02 UTC
RemoteUrl: https://github.com/pneuvial/adjclust
RemoteRef: HEAD
RemoteSha: 8dfea166a05f863976c83b8e73a5fcc30d36618a
NeedsCompilation: yes
Packaged: 2026-06-17 08:44:35 UTC; root
Author: Christophe Ambroise [aut],
  Shubham Chaturvedi [aut],
  Alia Dehman [aut],
  Pierre Neuvial [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-3584-9998>),
  Guillem Rigaill [aut],
  Nathalie Vialaneix [aut] (ORCID:
    <https://orcid.org/0000-0003-1156-0639>),
  Gabriel Hoffman [aut]