ConModelTest_cont       Covariate model test in longdat_cont() pipeline
ConModelTest_disc       Covariate model test in longdat_disc() pipeline
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_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
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
cliff_cal               Effect size (Cliff's delta) calculation 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_disc            Longitudinal analysis with time as discrete
                        variable
make_master_table       Create input master table from metadata and
                        feature tables for longdat_disc() and
                        longdat_cont()
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
