cliff_cal |
Effect size (Cliff's delta) calculation in longdat_disc() pipeline |
ConModelTest_cont |
Covariate model test in longdat_cont() pipeline |
ConModelTest_disc |
Covariate model test in longdat_disc() pipeline |
correlation_posthoc |
Post-hoc test based on correlation test for longdat_cont(). |
cuneiform_plot |
Create cuneiform plots of result table from longdat_disc() or longdat_cont() |
data_preprocess |
Data preprocessing |
factor_p_cal |
Calculate the p values for every factor (used for selecting factors later) |
final_result_summarize_cont |
Generate result table as output in longdat_cont() |
final_result_summarize_disc |
Generate result table as output in longdat_disc() |
fix_name_fun |
Replace the symbols in variable and covariate names in raw input |
longdat_cont |
Longitudinal analysis with time as continuous variable |
LongDat_cont_feature_table |
data/LongDat_cont_feature_table.RData documentation |
LongDat_cont_master_table |
data/LongDat_cont_master_table.RData documentation |
LongDat_cont_metadata_table |
data/LongDat_cont_metadata_table.RData documentation |
longdat_disc |
Longitudinal analysis with time as discrete variable |
LongDat_disc_feature_table |
data/LongDat_disc_feature_table.RData documentation |
LongDat_disc_master_table |
data/LongDat_disc_master_table.RData documentation |
LongDat_disc_metadata_table |
data/LongDat_disc_metadata_table.RData documentation |
make_master_table |
Create input master table from metadata and feature tables for longdat_disc() and longdat_cont() |
NuModelTest_cont |
Null Model Test and post-hoc Test in longdat_cont() pipeline |
NuModelTest_disc |
Null Model Test and post-hoc Test in longdat_disc() pipeline |
random_neg_ctrl_cont |
Randomized negative control for count data in longdat_cont() |
random_neg_ctrl_disc |
Randomized negative control for count data in longdat_disc() |
rm_sparse_cont |
Remove the dependent variables that are below the threshold of sparsity when the data type is count data in longdat_cont() |
rm_sparse_disc |
Remove the dependent variables that are below the threshold of sparsity when the data type is count data in longdat_disc() |
theta_plot |
Plot theta values of negative binomial models versus non-zero count for count data |
unlist_table |
Unlist confound (covariate) and inverse confound (covariate) tables, turn them into tables |
wilcox_posthoc |
Wilcoxon post-hoc test |