rnaSentry - Guarded and Auditable Discovery of Prognostic RNA-Seq Signatures

Orchestrates the statistical pipeline underlying prognostic biomarker discovery from bulk RNA-seq SummarizedExperiment objects: sample-identity and quality-control auditing, confounder and design-formula detection prior to differential expression, signature construction with explicit cross-validation stability reporting, survival modeling (Kaplan-Meier, log-rank, Cox proportional hazards), and external validation against public cohorts. Every automated statistical decision is reported with its supporting statistic and a plain-language rationale, and validation stages are gated rather than silently degraded when guardrail criteria are not met. The package records all guardrail decisions, flag ledgers, and validation results in a structured audit trail that can be rendered into a standalone HTML report.