build_signature         Build a prognostic gene signature from a
                        survival cohort
cox_model               Adjusted Cox proportional-hazards model for a
                        signature
design_audit            Audit candidate design covariates before
                        differential-expression modeling
fetch_gse20685          Fetch and process GSE20685 breast cancer cohort
generate_report         Generate the rnaSentry analysis report
km_curve                Kaplan-Meier survival analysis of a signature's
                        risk groups
load_counts             Validate and construct a SummarizedExperiment
                        from count data
lock_signature          Lock or unlock an rnaSentry signature
pca_audit               PCA audit of expression data with optional
                        batch association testing
plot_pca_audit          Plot PCA scores from a pca_audit result
qc_explore              Quality-control audit of a bulk RNA-seq
                        SummarizedExperiment
run_rnaSentry           Run the complete rnaSentry pipeline
sex_check               Verify reported sex against inferred biological
                        sex from expression
survival_parametric     Parametric survival models for a signature's
                        risk score
validate_external       Validate a signature on an external cohort
