Package: DA 1.2.0

DA: Discriminant Analysis for Evolutionary Inference

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:Xinghu Qin [aut, cre, cph]

DA_1.2.0.tar.gz
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DA.pdf |DA.html✨
DA/json (API)

Peer review:

Bug tracker:https://github.com/xinghuq/da/issues

On CRAN:

dapcdiscriminant-analysisecologicalkernelkernel-localkernel-principle-componentspopulation-structure-inferenceprincipal-components

14 exports 1 stars 6.19 score 124 dependencies 1.5k mentions 1 scripts 236 downloads

Last updated 3 years agofrom:ac25c45c19. Checks:OK: 1 ERROR: 6. Indexed: yes.

Exports:KLFDAKLFDA_mkKLFDAMkmatrixGaussLDAKPCLFDALFDAKPCMabayespredictpredict.KLFDApredict.KLFDA_mkpredict.LDAKPCpredict.LFDApredict.LFDAKPC

Dependencies:ade4adegenetapeaskpassbase64encbitbit64bootbslibcachemclassclassIntclicliprclustercolorspacecombinatcommonmarkcpp11crayoncrosstalkcurldata.tabledigestdplyre1071evaluatefansifarverfastmapfontawesomeforcatsfsgenericsggplot2gluegtablehavenhighrhmshtmltoolshtmlwidgetshttpuvhttrigraphisobandjquerylibjsonlitekernlabKernSmoothklaRknitrlabelinglabelledlaterlatticelazyevallfdalifecyclemagrittrMASSMatrixmemoisemgcvmimeminiUImunsellnlmeopensslpermutepillarpixmappkgconfigplotlyplyrprettyunitsprogresspromisesproxypurrrquestionrR.cacheR.methodsS3R.ooR.utilsR6rappdirsrARPACKRColorBrewerRcppRcppArmadilloRcppEigenreadrreshape2rlangrmarkdownrprojrootRSpectrarstudioapisassscalessegmentedseqinrshinysourcetoolsspstringistringrstylersystibbletidyrtidyselecttinytextzdbutf8vctrsveganviridisLitevroomwithrxfunxtableyaml