Files in themetagenomics

Exploring Thematic Structure and Predicted Functionality of 16s rRNA Amplicon Data

NEWS.md

MD5

README.md

NAMESPACE

DESCRIPTION

LICENSE

build/vignette.rds

src/gzstream.h

src/picrust_otu.cpp

src/RcppExports.cpp

src/gzstream.cpp

src/Makevars

src/themetagenomics_init.c

data/gevers.RData

data/david.RData

R/cnn.R R/s.R R/find_topics.R R/estimate_function_effects.R R/vis_functions.R R/download_ref.R R/RcppExports.R R/utils.R R/fit_ml.R R/prepare_data.R R/est.R R/vis_covariates_binary.R R/data_gevers.R R/data_david.R R/picrust.R R/vis_topics.R R/vis_taxa.R R/t4f.R R/estimate_topic_effects.R R/fit_hmc.R R/formatting.R R/vis.R R/vis_covariates_continuous.R R/extract_effects.R R/print.R R/predict.R R/resume_hmc.R vignettes/functional_prediction.Rmd vignettes/thematic_structure.Rmd

vignettes/theme_taxa_covw.png

vignettes/theme_taxa_t5_lambda.png

vignettes/theme_taxa_ord.png

vignettes/theme_cont_t14_abund_1.png

vignettes/theme_cont_t14_abund_2.png

vignettes/theme_taxa_corr.png

vignettes/theme_taxa_t5.png

vignettes/theme_cont_t14_ppd.png

vignettes/theme_func_hm.png

vignettes/theme_func_tbl.png

man/prepare_data.Rd man/picrust_otu.Rd man/est.Rd man/s.Rd man/est.topics.Rd man/vis.Rd man/picrust.Rd man/extract.Rd man/cnn.Rd man/t4f.Rd man/extract_stan_summary.Rd man/stm_wrapper.Rd man/download_ref.Rd man/find_topics.Rd man/est_topics_backend.Rd man/predict.topics.Rd man/est.functions.Rd man/DAVID.Rd man/resume.Rd man/GEVERS.Rd tests/testthat.R tests/testthat/test-function-effects.R tests/testthat/test-misc.R tests/testthat/test-predict.R tests/testthat/test-topic-effects.R tests/testthat/test-cnn.R tests/testthat/test-prepare.R tests/testthat/test-topics.R

inst/CITATION

inst/doc/functional_prediction.Rmd inst/doc/thematic_structure.Rmd inst/doc/thematic_structure.R

inst/doc/functional_prediction.html

inst/doc/thematic_structure.html

inst/doc/functional_prediction.R

inst/references/copy_numbers.rds

inst/references/16S_13_5_precalculated.tab.gz

inst/references/kegg_lookup_table.rds

inst/testdata/otufuncdata.rds

inst/testdata/seqdata.rds

inst/testdata/seqfuncdata.rds

inst/testdata/otudata.rds

themetagenomics documentation built on May 1, 2020, 1:06 a.m.