Files in JenniNiku/gllvm
Generalized Linear Latent Variable Models
.Rbuildignore
.gitignore
CITATION.cff
DESCRIPTION
NAMESPACE
NEWS.md
R/TMBtrait.R
R/VP.gllvm.R
R/aicc.gllvm.R
R/anova.gllvm.R
R/coef.gllvm.R
R/coefplot.gllvm.R
R/confint.gllvm.R
R/ecoCoefs.gllvm.R
R/getEnvironCov.gllvm.R
R/getLV.gllvm.R
R/getLoadings.gllvm.R
R/getPredictErr.gllvm.R
R/getResidualCor.gllvm.R
R/getResidualCov.gllvm.R
R/gllvm.R
R/gllvm.TMB.R
R/gllvm.VA.R
R/gllvm.auxiliary.R
R/gllvm.iter.R
R/gllvm.makeform.R
R/logLik.gllvm.R
R/ordiplot.gllvm.R
R/phyloplot.gllvm.R
R/plot.gllvm.R
R/plotVP.gllvm.R
R/predict.gllvm.R
R/predictLVs.gllvm.R
R/print.gllvm.R
R/randomCoefplot.R
R/residuals.gllvm.R
R/se.gllvm.R
R/simulate.gllvm.R
R/summary.gllvm.R
R/vcov.gllvm.R
R/zzz.R
README.md
data/Skabbholmen.RData
data/beetle.RData
data/eSpider.RData
data/fungi.RData
data/kelpforest.RData
data/microbialdata.RData
docs/404.html
docs/articles/VP1-1.png
docs/articles/VP2-1.png
docs/articles/Xcovar-1.png
docs/articles/bigplot-1.png
docs/articles/corrplot-1.png
docs/articles/index.html
docs/articles/lvAR-1.png
docs/articles/ordiplot1-1.png
docs/articles/plotrow-1.png
docs/articles/specord-1.png
docs/articles/vignette1.html
docs/articles/vignette1_files/figure-html/unnamed-chunk-11-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-12-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-13-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-13-2.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-14-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-18-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-18-2.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-18-3.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-19-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-19-2.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-19-3.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-23-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-25-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-26-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-26-2.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-30-1.png
docs/articles/vignette1_files/figure-html/unnamed-chunk-30-2.png
docs/articles/vignette2.html
docs/articles/vignette2_files/figure-html/unnamed-chunk-10-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-14-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-15-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-18-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-19-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-22-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-3-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-7-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-8-1.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-8-2.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-8-3.png
docs/articles/vignette2_files/figure-html/unnamed-chunk-9-1.png
docs/articles/vignette3.html
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-1.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-10.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-2.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-3.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-4.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-5.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-6.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-7.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-8.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-11-9.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-16-1.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-17-1.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-18-1.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-5-1.png
docs/articles/vignette3_files/figure-html/unnamed-chunk-8-1.png
docs/articles/vignette4.html
docs/articles/vignette4_files/figure-html/unnamed-chunk-11-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-11-2.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-17-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-18-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-20-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-21-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-22-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-6-1.png
docs/articles/vignette4_files/figure-html/unnamed-chunk-8-1.png
docs/articles/vignette5.html
docs/articles/vignette5_files/figure-html/curves-1.png
docs/articles/vignette5_files/figure-html/quad_plot-1.png
docs/articles/vignette6.html
docs/articles/vignette6_files/figure-html/fixuGLLVM-1.png
docs/articles/vignette6_files/figure-html/unnamed-chunk-10-1.png
docs/articles/vignette6_files/figure-html/unnamed-chunk-13-1.png
docs/articles/vignette6_files/figure-html/unnamed-chunk-15-1.png
docs/articles/vignette6_files/figure-html/unnamed-chunk-17-1.png
docs/articles/vignette6_files/figure-html/unnamed-chunk-7-1.png
docs/articles/vignette7.html
docs/articles/vignette8.html
docs/articles/vignette8_files/figure-html/unnamed-chunk-5-1.png
docs/articles/vignette9.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/AICc.html
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/Rplot004.png
docs/reference/Rplot005.png
docs/reference/Rplot006.png
docs/reference/Rplot007.png
docs/reference/Rplot008.png
docs/reference/Rplot009.png
docs/reference/Rplot010.png
docs/reference/Rplot011.png
docs/reference/Rplot012.png
docs/reference/Rplot013.png
docs/reference/Rplot014.png
docs/reference/Rplot015.png
docs/reference/Rplot016.png
docs/reference/Rplot017.png
docs/reference/Rplot018.png
docs/reference/Rplot019.png
docs/reference/Rplot020.png
docs/reference/Skabbholmen.html
docs/reference/anova.gllvm.html
docs/reference/beetle.html
docs/reference/coefplot.gllvm-1.png
docs/reference/coefplot.gllvm.html
docs/reference/confint.gllvm.html
docs/reference/eSpider.html
docs/reference/ecoCoefs.html
docs/reference/fungi.html
docs/reference/getEnvironCov.gllvm.html
docs/reference/getLV.gllvm.html
docs/reference/getLoadings.gllvm.html
docs/reference/getPredictErr.gllvm.html
docs/reference/getResidualCor.gllvm.html
docs/reference/getResidualCov.gllvm.html
docs/reference/gllvm-1.png
docs/reference/gllvm-10.png
docs/reference/gllvm-11.png
docs/reference/gllvm-12.png
docs/reference/gllvm-13.png
docs/reference/gllvm-14.png
docs/reference/gllvm-15.png
docs/reference/gllvm-16.png
docs/reference/gllvm-17.png
docs/reference/gllvm-18.png
docs/reference/gllvm-19.png
docs/reference/gllvm-2.png
docs/reference/gllvm-20.png
docs/reference/gllvm-3.png
docs/reference/gllvm-4.png
docs/reference/gllvm-5.png
docs/reference/gllvm-6.png
docs/reference/gllvm-7.png
docs/reference/gllvm-8.png
docs/reference/gllvm-9.png
docs/reference/gllvm.html
docs/reference/index.html
docs/reference/kelpforest.html
docs/reference/logLik.gllvm.html
docs/reference/microbialdata.rd
docs/reference/ordiplot.gllvm-1.png
docs/reference/ordiplot.gllvm.html
docs/reference/phyloplot.gllvm.html
docs/reference/plot.gllvm.html
docs/reference/predict.gllvm.html
docs/reference/predictLVs.gllvm.html
docs/reference/randomCoefplot.gllvm.html
docs/reference/residuals.gllvm.html
docs/reference/se.gllvm.html
docs/reference/simulate.gllvm.html
docs/reference/summary.gllvm.html
docs/reference/varPartitioning.gllvm-1.png
docs/reference/varPartitioning.gllvm.html
docs/reference/vcov.gllvm.html
docs/sitemap.xml
gllvm.Rproj
inst/CITATION
man/AICc.Rd
man/Skabbholmen.Rd
man/anova.gllvm.Rd
man/beetle.Rd
man/coefplot.gllvm.Rd
man/confint.gllvm.Rd
man/eSpider.Rd
man/ecoCoefs.Rd
man/fungi.Rd
man/getEnvironCov.gllvm.Rd
man/getLV.gllvm.Rd
man/getLoadings.gllvm.Rd
man/getPredictErr.gllvm.Rd
man/getResidualCor.gllvm.Rd
man/getResidualCov.gllvm.Rd
man/gllvm.Rd
man/kelpforest.Rd
man/logLik.gllvm.Rd
man/microbialdata.rd
man/ordiplot.gllvm.Rd
man/phyloplot.gllvm.Rd
man/plot.gllvm.Rd
man/predict.gllvm.Rd
man/predictLVs.gllvm.Rd
man/randomCoefplot.gllvm.Rd
man/residuals.gllvm.Rd
man/se.gllvm.Rd
man/simulate.gllvm.Rd
man/summary.gllvm.Rd
man/varPartitioning.gllvm.Rd
man/vcov.gllvm.Rd
src/Makevars
src/distrib.h
src/gllvm.cpp
src/utils.h
tests/testthat.R
tests/testthat/test-fitgllvm.R
vignettes/F4.png
vignettes/F4coef.png
vignettes/RRGLM.RData
vignettes/RRGLMb1.RData
vignettes/VP1-1.png
vignettes/VP2-1.png
vignettes/Xcovar-1.png
vignettes/bigplot-1.png
vignettes/corrplot-1.png
vignettes/fit_4th.Rdata
vignettes/fixUGLLVM.RData
vignettes/ftCGLLVM.RData
vignettes/ftComTol.RData
vignettes/ftEqTol.RData
vignettes/ftNULL.RData
vignettes/ftNULLpois.RData
vignettes/ftUneqTol.RData
vignettes/ftX.RData
vignettes/ftXi.RData
vignettes/ftXph.RData
vignettes/groupUGLLVM.RData
vignettes/lvAR-1.png
vignettes/ordiplot1-1.png
vignettes/plotrow-1.png
vignettes/specord-1.png
vignettes/vignette1.Rmd
vignettes/vignette2.rmd
vignettes/vignette3.rmd
vignettes/vignette4.rmd
vignettes/vignette5.Rmd
vignettes/vignette6.Rmd
vignettes/vignette7.Rmd
vignettes/vignette7.Rmd.orig
vignettes/vignette7.html
vignettes/vignette7model1.RData
vignettes/vignette8.Rmd
vignettes/vignette9.Rmd
