Files in mani2012/PathoStat
PathoStat Statistical Microbiome Analysis Package

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/allClasses.R R/biomarker.R R/confRegion.R R/coreOTUModule.R R/differentialAnalysis.R R/normalization.R R/pathoStat.R R/taxonomy.R R/utils.R R/visualization.R README.md
data/asthma_pstat_data.rda
data/pstat_data.rda
data/pstat_data_2_L1.rda
data/pstat_data_2_L2.rda
inst/NEWS.Rd
inst/example/data/count_example/annotation_example.csv
inst/example/data/count_example/count_example.csv
inst/example/data/pathoscope_example/Sample_01_1-sam-report.tsv
inst/example/data/pathoscope_example/Sample_01_2-sam-report.tsv
inst/example/data/pathoscope_example/Sample_01_3-sam-report.tsv
inst/example/data/pathoscope_example/Sample_02_1-sam-report.tsv
inst/example/data/pathoscope_example/Sample_02_2-sam-report.tsv
inst/example/data/pathoscope_example/Sample_02_3-sam-report.tsv
inst/example/data/pathoscope_example/Sample_03_1-sam-report.tsv
inst/example/data/pathoscope_example/Sample_03_2-sam-report.tsv
inst/example/data/pathoscope_example/Sample_03_3-sam-report.tsv
inst/example/data/pathoscope_example/sample_data.tsv
inst/example/libs/bootstrap/css/bootstrap-responsive.min.css
inst/example/libs/bootstrap/css/bootstrap.min.css
inst/example/libs/bootstrap/css/user.css
inst/example/libs/bootstrap/javascript/bootstrap.min.js
inst/example/libs/bootstrap/javascript/jquery-1.10.1.min.js
inst/example/libs/bootstrap/javascript/user.js
inst/example/pathostat_pipeline.R
inst/reports/PathoStat.html
inst/reports/libs/bootstrap/css/bootstrap-responsive.min.css
inst/reports/libs/bootstrap/css/bootstrap.min.css
inst/reports/libs/bootstrap/css/user.css
inst/reports/libs/bootstrap/javascript/bootstrap.min.js
inst/reports/libs/bootstrap/javascript/jquery-1.10.1.min.js
inst/reports/libs/bootstrap/javascript/user.js
inst/reports/pathostat_report.Rmd inst/shiny/PathoStat/helpers.R
inst/shiny/PathoStat/libs/bootstrap/css/bootstrap-responsive.min.css
inst/shiny/PathoStat/libs/bootstrap/css/bootstrap.min.css
inst/shiny/PathoStat/libs/bootstrap/css/user.css
inst/shiny/PathoStat/libs/bootstrap/javascript/bootstrap.min.js
inst/shiny/PathoStat/libs/bootstrap/javascript/jquery-1.10.1.min.js
inst/shiny/PathoStat/libs/bootstrap/javascript/user.js
inst/shiny/PathoStat/server.R inst/shiny/PathoStat/ui.R inst/shiny/PathoStat/ui_01_upload.R inst/shiny/PathoStat/ui_02_filter.R inst/shiny/PathoStat/ui_07_biomarker.R
inst/shiny/PathoStat/www/ajax-loader-bar.gif
inst/shiny/PathoStat/www/bootstrap.min.css
inst/shiny/PathoStat/www/bu_bioinfo_logo.png
inst/shiny/PathoStat/www/bu_logo.png
inst/shiny/PathoStat/www/cbm_logo.jpeg
man/Chisq_Test_Pam.Rd man/Fisher_Test_Pam.Rd man/GET_PAM.Rd man/PathoStat-class.Rd man/TranslateIdToTaxLevel.Rd man/Wilcox_Test_df.Rd man/coreOTU.Rd man/coreOTUModule.Rd man/coreOTUModuleUI.Rd man/coreOTUNormalize.Rd man/coreOTUQuantile.Rd man/createPathoStat.Rd man/findRAfromCount.Rd man/findTaxonLevel.Rd man/findTaxonLevelData.Rd man/findTaxonMat.Rd man/findTaxonomy.Rd man/formatTaxTable.Rd man/getShinyInput.Rd man/getShinyInputCombat.Rd man/getShinyInputOrig.Rd man/getSignatureFromMultipleGlmnet.Rd man/get_core.Rd man/get_coremat.Rd man/get_coremat_lineplot.Rd man/grepTid.Rd man/loadPathoscopeReports.Rd man/loadPstat.Rd man/log2CPM.Rd man/pathostat.Rd man/phyloseq_to_edgeR.Rd man/plotConfRegion.Rd man/plotHeatmapColor.Rd man/plotPCAPlotly.Rd man/plotPCoAPlotly.Rd man/pstat_data.Rd man/readPathoscopeData.Rd man/runPathoStat.Rd man/savePstat.Rd man/setShinyInput.Rd man/setShinyInputCombat.Rd man/setShinyInputOrig.Rd man/sizeNormalize.Rd tests/testthat.R tests/testthat/test_PathoStat.R vignettes/PathoStatAdvanced.Rmd vignettes/PathoStatIntro.Rmd vignettes/PathoStatUserManual.Rmd
vignettes/img/cr.png
vignettes/img/cu.png
vignettes/img/de_limma.png
vignettes/img/de_rp.png
vignettes/img/de_table.png
vignettes/img/di_ad.png
vignettes/img/di_bd.png
vignettes/img/di_bip.png
vignettes/img/di_coo.png
vignettes/img/di_et.png
vignettes/img/pca_ev.png
vignettes/img/pca_pca.png
vignettes/img/ra_ct.png
vignettes/img/ra_heat.png
vignettes/img/ra_ra.png
vignettes/img/ra_summary.png
vignettes/img/ra_taxlevel.png
vignettes/img/ts.png
mani2012/PathoStat documentation built on Jan. 14, 2018, 8:48 p.m.