Files in fido
Bayesian Multinomial Logistic Normal Regression
configure
MD5
NEWS.md
NAMESPACE
configure.ac
DESCRIPTION
cleanup
R/RcppExports.R
R/pibble_sim.R
R/fit_basset.R
R/fit_maltipoo.R
R/fidofit_s3.R
R/fido_utils.R
R/fido.R
R/fido_transforms.R
R/iqlr.R
R/maltipoo_sim.R
R/RISK_CCFA.R
R/mallard-data.R
R/fit_pibble.R
R/fit_orthus.R
R/R2.R
R/pcrbias_mock-data.R
R/orthus_sim.R
R/generics_s3.R
R/orthus_transform_wrapper.R
R/mallard_family-data.R
R/pibble_plotting.R
R/fidofit_methods.R
R/kernels.R
R/bassetfit_s3.R
R/maltipoofit_s3.R
R/driver-utils.R
src/Makevars.win
src/MaltipooCollapsed_Optim.cpp
src/test_utils.cpp
src/RcppExports.cpp
src/SpecialFunctions.cpp
src/MatrixAlgebra.cpp
src/PibbleCollapsed_Uncollapse_sigmaKnown.cpp
src/PibbleCollapsed_Optim.cpp
src/PibbleCollapsed_LGH.cpp
src/test_MultDirichletBoot.cpp
src/Makevars.in
src/test_LaplaceApproximation.cpp
src/ConjugateLinearModel.cpp
src/MaltipooCollapsed_LGH.cpp
src/PibbleCollapsed_Uncollapse.cpp
inst/fido.png
inst/CITATION
inst/include/MatrixAlgebra.h
inst/include/LaplaceApproximation.h
inst/include/MatDist_thread.h
inst/include/SpecialFunctions.h
inst/include/MaltipooCollapsed.h
inst/include/AdamOptim.h
inst/include/fido.h
inst/include/fidoGenerated.h.in
inst/include/MongrelModelClass.h
inst/include/MatDist.h
inst/include/MultDirichletBoot.h
inst/include/PibbleCollapsed.h
inst/doc/picking_priors.html
inst/doc/mitigating-pcrbias.html
inst/doc/introduction-to-fido.Rmd
inst/doc/non-linear-models.Rmd
inst/doc/non-linear-models.html
inst/doc/mitigating-pcrbias.R
inst/doc/non-linear-models.R
inst/doc/introduction-to-fido.html
inst/doc/picking_priors.Rmd
inst/doc/orthus.R
inst/doc/picking_priors.R
inst/doc/mitigating-pcrbias.Rmd
inst/doc/orthus.Rmd
inst/doc/orthus.html
inst/extdata/Kashyap2013/metabolites.csv
inst/extdata/Kashyap2013/microbe.rda
inst/extdata/Kashyap2013/README.txt
build/vignette.rds
tests/testthat.R
tests/testthat/test-iqlr.R
tests/testthat/test-orthus.R
tests/testthat/test-linesearch.R
tests/testthat/test-hessian.R
tests/testthat/test-utils.R
tests/testthat/test-transforms.R
tests/testthat/test-laplaceapproximation.R
tests/testthat/test-orthus-transforms.R
tests/testthat/test-multdirichletboot.R
tests/testthat/test-ilr.R
tests/testthat/test-baseFuns.R
tests/testthat/test-basset.R
tests/testthat/test-pibble.R
tests/testthat/test-kernels.R
tests/testthat/test-sylvester-speedups.R
tests/testthat/test-matdist.R
tests/testthat/Rplots.pdf
tests/testthat/test-R2.R
tests/testthat/test-hvp.R
tests/testthat/test-numCores.R
tests/testthat/test-maltipoo.R
tests/testthat/test-mongrelfit-methods.R
vignettes/fido-lambda-res.png
vignettes/pibble-CD-clr.png
vignettes/bibliography.bib
vignettes/introduction-to-fido.Rmd
vignettes/fido-lambda-all.png
vignettes/non-linear-models.Rmd
vignettes/pcrbias_summary_graphic.png
vignettes/pibble-ppc-sum.png
vignettes/pcr-results-cycle-num.png
vignettes/pcr-max-lik.png
vignettes/fido-ppc-scratch.png
vignettes/picking_priors.Rmd
vignettes/pibble-posterior-summary.png
vignettes/pibble-priors.png
vignettes/orthus-prior-structure.png
vignettes/pibble-ppc.png
vignettes/fido-lambda-cd.png
vignettes/pcr-model-results.png
vignettes/mitigating-pcrbias.Rmd
vignettes/fido-ppc.png
vignettes/orthus.Rmd
vignettes/pcr-clr-cycle-num.png
data/mallard.RData
data/RISK_CCFA.RData
data/pcrbias_mock.RData
data/mallard_family.RData
man/loglikPibbleCollapsed.Rd
man/print.pibblefit.Rd
man/alrInv.Rd
man/store_coord.Rd
man/summary.pibblefit.Rd
man/as.orthusfit.Rd
man/r2.Rd
man/alrInv_array.Rd
man/conjugateLinearModel.Rd
man/summarise_posterior.Rd
man/orthus_tidy_samples.Rd
man/fido_transforms.Rd
man/pibble_fit.Rd
man/clr_array.Rd
man/alr.Rd
man/lmvgamma.Rd
man/coef.pibblefit.Rd
man/verify.pibblefit.Rd
man/lmvgamma_deriv.Rd
man/verify.Rd
man/RISK_CCFA_sam.Rd
man/uncollapsePibble.Rd
man/uncollapsePibble_sigmaKnown.Rd
man/ppc.Rd
man/lambda_to_iqlr.Rd
man/plot.pibblefit.Rd
man/summary.orthusfit.Rd
man/req.orthusfit.Rd
man/as.pibblefit.Rd
man/mallard.Rd
man/ppc_summary.Rd
man/pibble_sim.Rd
man/access_dims.Rd
man/basset_fit.Rd
man/RISK_CCFA.Rd
man/optimPibbleCollapsed.Rd
man/metadata.Rd
man/miniclo.Rd
man/mongrel-deprecated.Rd
man/verify.bassetfit.Rd
man/orthus_fit.Rd
man/mallard_family.Rd
man/pcrbias_mock.Rd
man/check_dims.Rd
man/name.orthusfit.Rd
man/pibble_tidy_samples.Rd
man/name.Rd
man/alr_array.Rd
man/req.pibblefit.Rd
man/gather_array.Rd
man/Y.Rd
man/sample_prior.pibblefit.Rd
man/verify.orthusfit.Rd
man/RISK_CCFA_tax.Rd
man/fido_package.Rd
man/kernels.Rd
man/miniclo_array.Rd
man/orthus_lr_transforms.Rd
man/RISK_CCFA_otu.Rd
man/sample_prior.Rd
man/orthus_sim.Rd
man/as.list.orthusfit.Rd
man/convert_orthus_covariance.Rd
man/ppc.pibblefit.Rd
man/refit.Rd
man/name_dims.Rd
man/orthusfit.Rd
man/as.list.pibblefit.Rd
man/name.pibblefit.Rd
man/print.orthusfit.Rd
man/coef.orthusfit.Rd
man/req.Rd
man/predict.pibblefit.Rd
man/predict.bassetfit.Rd
man/pibblefit.Rd
man/create_default_ilr_base.Rd
man/random_pibble_init.Rd
