Package index • clinstats

Discrimination and odds ratios

roc_summary(): Summarise the diagnostic performance of a numeric marker
odds_ratio(): Odds ratio for a marker with a binary outcome

Regression tables

cox_table() logistic_table(): Regression tables for clinical variables
evaluate_model(): Evaluate a prediction model on training and test data

Survival analysis

survival_cutoff(): Survival cut point optimising the Youden index
survival_response(): Build a survival response from a clinical data frame
resample_cox(): Resampling-based Cox screening of candidate markers

Expression data

clean_expression(): Clean an expression matrix and collapse duplicated gene columns
oncotype_crc(): Oncotype DX colon cancer recurrence score

TCGA clinical data

tcga_clinical(): Extract clinical variables from a legacy TCGA clinical table

Datasets

clin_crc clin_crc_gf clin_crc_cell: Curated colorectal cancer clinical data

Reporting

copy_report_template(): Copy the bundled Quarto analysis report template