Package: DA
Version: 1.2.0
Date: 2021-07-11
Title: Discriminant Analysis for Evolutionary Inference
Description: Discriminant Analysis (DA) for evolutionary inference
        (Qin, X. et al, 2020, <doi:10.22541/au.159256808.83862168>),
        especially for population genetic structure and community
        structure inference. This package incorporates the commonly
        used linear and non-linear, local and global supervised
        learning approaches (discriminant analysis), including Linear
        Discriminant Analysis of Kernel Principal Components (LDAKPC),
        Local (Fisher) Linear Discriminant Analysis (LFDA), Local
        (Fisher) Discriminant Analysis of Kernel Principal Components
        (LFDAKPC) and Kernel Local (Fisher) Discriminant Analysis
        (KLFDA). These discriminant analyses can be used to do
        ecological and evolutionary inference, including demography
        inference, species identification, and population/community
        structure inference.
Authors@R: c(person("Xinghu", "Qin", role=c("aut", "cre", "cph"),
        email="qinxinghu@gmail.com", comment=c(ORCID="0000-0003-2351-3610")))
biocViews: BiomedicalInformatics, ChIPSeq, Clustering, Coverage,
        DNAMethylation, DifferentialExpression,
        DifferentialMethylation,Software, DifferentialSplicing,
        Epigenetics, FunctionalGenomics, GeneExpression,
        GeneSetEnrichment, Genetics, ImmunoOncology,
        MultipleComparison, Normalization, Pathways, QualityControl,
        RNASeq, Regression, SAGE, Sequencing, Software, SystemsBiology,
        TimeCourse, Transcription, Transcriptomics
Depends: R (>= 3.5)
License: GPL-3
SystemRequirements: GNU make
URL: https://xinghuq.github.io/DA/index.html
BugReports: https://github.com/xinghuq/DA/issues
Imports:
        adegenet,lfda,MASS,kernlab,klaR,plotly,rARPACK,grDevices,stats,utils
VignetteBuilder: knitr
NeedsCompilation: no
RoxygenNote: 6.1.1
Suggests: knitr,testthat,rmarkdown
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libssl-dev libx11-dev zlib1g-dev
Repository: https://xinghuq.r-universe.dev
Date/Publication: 2021-07-11 04:34:22 UTC
RemoteUrl: https://github.com/xinghuq/da
RemoteRef: HEAD
RemoteSha: ac25c45c193d32d8d8475a6ad580922915887118
Packaged: 2026-09-17 07:41:29 UTC; root
Author: Xinghu Qin [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0003-2351-3610>)
Maintainer: Xinghu Qin <qinxinghu@gmail.com>