DESCRIPTION

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: 2024-10-07
Version: 0.6.10
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