Files in nearinj/Healthy_Oral_Microbiome
Analysis for Healthy Oral Microbiome Atlantic PATH Cohort
.Rbuildignore
.gitignore
DESCRIPTION
HealthyOralMicrobiome.Rproj
Meta/vignette.rds
NAMESPACE
R/Analysis_Functions.R
R/hello.R
README.md
data/Comp_ASV_CC_Res.rda
data/Comp_Bray_curt_res.rda
data/Comp_Genus_CC_Res.rda
data/Comp_W_unifrac_res.rda
data/Healthy_ASV_table.rda
data/Healthy_ASV_table_Rare.rda
data/Healthy_Bray_Curt.rda
data/Healthy_Evenness.rda
data/Healthy_Faiths.rda
data/Healthy_Genus_Rare.rda
data/Healthy_Genus_Table.rda
data/Healthy_Metadata.rda
data/Healthy_Richness.rda
data/Healthy_Shannon.rda
data/Healthy_W_Unifrac.rda
data/Taxa_Labels.rda
data/Valid_ASV_CC_Res.rda
data/Valid_Bray_Samp_Size.rda
data/Valid_Bray_res.rda
data/Valid_Genus_CC_Res.rda
data/Valid_W_unifrac_Samp_Size.rda
data/Valid_W_unifrac_res.rda
doc/Alpha_Diversity_Analysis.R
doc/Alpha_Diversity_Analysis.Rmd
doc/Alpha_Diversity_Analysis.html
doc/Beta_Diversity_Analysis.R
doc/Beta_Diversity_Analysis.Rmd
doc/Beta_Diversity_Analysis.html
doc/Beta_Diversity_Validation.R
doc/Beta_Diversity_Validation.Rmd
doc/Beta_Diversity_Validation.html
doc/Core_Microbiome.R
doc/Core_Microbiome.Rmd
doc/Core_Microbiome.html
doc/Corncob_DA_Analysis.R
doc/Corncob_DA_Analysis.Rmd
doc/Corncob_DA_Analysis.html
doc/Corncob_DA_Validation_Analysis.R
doc/Corncob_DA_Validation_Analysis.Rmd
doc/Corncob_DA_Validation_Analysis.html
man/Filt_samples.Rd
man/get_alpha_divs.Rd
man/get_beta_div.Rd
man/get_core_features.Rd
man/hello.Rd
man/remove_rare_features.Rd
man/run_alpha_compare.Rd
man/run_corn_cob_analysis.Rd
man/valid_corn_cob_analysis.Rd
vignettes/.gitignore
vignettes/Alpha_Diversity_Analysis.Rmd
vignettes/Beta_Diversity_Analysis.Rmd
vignettes/Beta_Diversity_Validation.Rmd
vignettes/Core_Microbiome.Rmd
vignettes/Corncob_DA_Analysis.Rmd
vignettes/Corncob_DA_Validation_Analysis.Rmd
