Files in bryandmartin/corncob

Count Regression for Correlated Observations with the Beta-Binomial

R/HDIbetabinom.R R/bbdml.R R/checkNested.R R/clean_taxa_names.R R/contrastsTest.R R/convert_phylo.R R/corncob.R R/dbetabin.R R/dbetabinom_ee.R R/differentialTest.R R/doBoot.R R/genInits.R R/getRestrictionTerms.R R/gr_full.R R/hessian.R R/ibd_phylo_otu.R R/ibd_phylo_sample.R R/ibd_phylo_taxa.R R/links.R R/lrtest.R R/objfun.R R/otu_to_taxonomy.R R/pbLRT.R R/pbRao.R R/pbWald.R R/plot_bbdml.R R/plot_differentialTest.R R/print_bbdml.R R/print_differentialTest.R R/print_summary_bbdml.R R/qbetabinom.R R/rao.R R/sandSE.R R/score.R R/separation.R R/simulate.R R/soil_phylo_otu.R R/soil_phylo_sample.R R/soil_phylo_taxa.R R/soil_phylum_contrasts_otu.R R/soil_phylum_contrasts_sample.R R/soil_phylum_small_otu.R R/soil_phylum_small_otu1.R R/soil_phylum_small_sample.R R/summary_bbdml.R R/utils-pipe.R R/wald.R R/warn_phyloseq.R README.md cran-comments.md man/HDIbetabinom.Rd man/bbdml.Rd man/checkNested.Rd man/clean_taxa_names.Rd man/contrastsTest.Rd man/convert_phylo.Rd man/corncob-package.Rd man/coth.Rd man/dbetabin.Rd man/dbetabin_neg.Rd man/dbetabinom_cts.Rd man/differentialTest.Rd man/doBoot.Rd man/fishZ.Rd man/genInits.Rd man/getRestrictionTerms.Rd man/gr_full.Rd man/hessian.Rd man/ibd_phylo_otu.Rd man/ibd_phylo_sample.Rd man/ibd_phylo_taxa.Rd man/invfishZ.Rd man/invlogit.Rd man/logit.Rd man/lrtest.Rd man/objfun.Rd man/otu_to_taxonomy.Rd man/pbLRT.Rd man/pbRao.Rd man/pbWald.Rd man/pipe.Rd man/plot.bbdml.Rd man/plot.differentialTest.Rd man/print.bbdml.Rd man/print.differentialTest.Rd man/print.summary.bbdml.Rd man/qbetabinom.Rd man/raotest.Rd man/sandSE.Rd man/sand_vcov.Rd man/score.Rd man/simulate.bbdml.Rd man/soil_phylo_otu.Rd man/soil_phylo_sample.Rd man/soil_phylo_taxa.Rd man/soil_phylum_contrasts_otu.Rd man/soil_phylum_contrasts_sample.Rd man/soil_phylum_small_otu.Rd man/soil_phylum_small_otu1.Rd man/soil_phylum_small_sample.Rd man/summary.bbdml.Rd man/waldchisq.Rd man/waldchisq_test.Rd man/waldt.Rd man/warn_phyloseq.Rd tests/testthat.R tests/testthat/test_bbdml.R tests/testthat/test_contrastsTest.R tests/testthat/test_differentialTest.R tests/testthat/test_genInits.R tests/testthat/test_getRestrictionTerms.R tests/testthat/test_links.R tests/testthat/test_lrtest.R tests/testthat/test_noninteger.R tests/testthat/test_objfun.R tests/testthat/test_pb.R tests/testthat/test_qbetabinom.R tests/testthat/test_raotest.R tests/testthat/test_s3.R tests/testthat/test_scorehessian.R tests/testthat/test_separation.R tests/testthat/test_simulate.R tests/testthat/test_std_errors.R tests/testthat/test_testsRequiringPhyloseq.R tests/testthat/test_waldtest.R vignettes/corncob-intro-no-phyloseq.Rmd vignettes/corncob-intro.Rmd