Files in MicrobiotaProcess
an R package for analysis, visualization and biomarker discovery of microbiome

NAMESPACE

DESCRIPTION

R/method-diff-analysis.R R/plot-ggordpoint.R R/plot-ggordpoint-utilities.R R/method-io.R R/method-get-vennlist.R R/method-as.data.frame.R R/utilities.R R/AllClass.R R/plot-ggclust.R R/plot-ggdiffclade-utilities.R R/method-get-pcoa.R R/method-get-alphaindex.R R/method-download-seq.R R/reexports.R R/diff-analysis-utilities.R R/diff-ml-utilities.R R/method-get-clust.R R/method-as.treedata.R R/plot-ggbox.R R/method-get-rarecurve.R R/plot-ggbartaxa.R R/plot-ggeffectsize.R R/plot-ggrarecurve.R R/method-get-dist.R R/method-show.R R/plot-ggdiffclade.R R/plot-ggdiffbox.R R/taxa_utilities.R R/plot-ggdiffbartaxa.R R/method-generalizedFC.R R/method-get-taxa.R R/method-get-upset.R R/method-get-pca.R R/method-drop-taxa.R R/method-get-count-ratio.R R/alldata.R

inst/doc/MicrobiotaProcess-basics.html

inst/doc/MicrobiotaProcess-biomaker-discovery.html

inst/doc/MicrobiotaProcess-biomaker-discovery.Rmd inst/doc/MicrobiotaProcess-basics.R inst/doc/MicrobiotaProcess-basics.Rmd inst/doc/MicrobiotaProcess-biomaker-discovery.R

inst/extdata/taxa.qza

inst/extdata/otu_tax_table.txt

inst/extdata/mouse_sample_info.txt

inst/extdata/taxa_tab.rds

inst/extdata/metadata_qza.txt

inst/extdata/table.qza

inst/extdata/mouse_taxda.txt

inst/extdata/sample_info.txt

inst/extdata/mouse_feature_matrix.txt

inst/extdata/mouse.time.dada2.txt

inst/extdata/seqtab.nochim.rds

build/vignette.rds

tests/testthat.R tests/testthat/test_getvennlist.R tests/testthat/test_multicompare.R tests/testthat/test_extractargs.R tests/testthat/test_gettax.R tests/testthat/test_convert.R

vignettes/MicrobiotaProcess.bib

vignettes/MicrobiotaProcess-biomaker-discovery.Rmd vignettes/MicrobiotaProcess-basics.Rmd

data/datalist

data/test_otu_data.rda

data/hmp_aerobiosis_small.rda

data/kostic2012crc.rda

man/diffAnalysisClass-class.Rd man/ggbox.Rd man/split_str_to_list.Rd man/get_dist.Rd man/drop_taxa.Rd man/ggclust.Rd man/as.data.frame.Rd man/get_mean_median.Rd man/reexports.Rd man/get_vennlist.Rd man/split_data.Rd man/multi_compare.Rd man/get_alltaxadf.Rd man/pcasample-class.Rd man/ggrarecurve.Rd man/alphasample-class.Rd man/get_upset.Rd man/get_count.Rd man/get_coord.Rd man/data-hmp_aerobiosis_small.Rd man/convert_to_treedata.Rd man/build_tree.Rd man/ggeffectsize.Rd man/import_qiime2.Rd man/clustplotClass-class.Rd man/get_taxadf.Rd man/theme_taxbar.Rd man/generalizedFC.Rd man/ggdiffbox.Rd man/get_clust.Rd man/data-kostic2012crc.Rd man/prcomp-class.Rd man/read_qza.Rd man/get_pca.Rd man/ggdiffclade.Rd man/get_alphaindex.Rd man/get_rarecurve.Rd man/data-test_otu_data.Rd man/as.treedata.Rd man/get_pcoa.Rd man/get_pvalue.Rd man/diff_analysis.Rd man/import_dada2.Rd man/ggdifftaxbar.Rd man/show-methods.Rd man/get_varct.Rd man/ordplotClass-class.Rd man/ggordpoint.Rd man/ggbartax.Rd man/get_sampledflist.Rd man/pcoa-class.Rd

MicrobiotaProcess documentation built on April 18, 2021, 6 p.m.

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