Search: "evidence"

Performs graph-assisted triage of a single security finding, SARIF result, weAudit annotation, suspicious function, or report excerpt using Trailmark reachability, entrypoint paths, taint, privilege-boundary, blast-radius, caller/callee, and neighborhood evidence. Use when deciding whether one candidate issue is reachable, prioritizing a finding before PoC work, preparing evidence for exploit validation, or checking whether a static-analysis result is actionable.

Validates security patches with reproducible baseline-versus-patched evidence, including original exploits, root-cause variants, behavior preservation, regressions, and newly introduced security failures. Use after a patch exists and before accepting, merging, or reporting it as fixed; also use when an AI-generated patch, remediation commit, pull request, or proposed upstream fix needs adversarial post-patch validation across any language.

Systematic code maturity assessment using Trail of Bits' 9-category framework. Analyzes codebase for arithmetic safety, auditing practices, access controls, complexity, decentralization, documentation, MEV risks, low-level code, and testing, then produces a scorecard with evidence-based ratings and a priority-ordered roadmap. Use when assessing or scoring the maturity of a smart contract or blockchain codebase, producing a maturity scorecard or evaluation, or judging how mature, well-tested, or well-documented such a project is against a rubric.

Use when about to claim work is complete, fixed, or passing, before committing or creating PRs - requires running verification commands and confirming output before making any success claims; evidence before assertions always

Applies Arbor Hypothesis Tree Refinement to research artifacts with repeatable evaluators, including model training, agent harnesses, data synthesis and benchmark optimization. Uses persistent hypotheses, isolated experiments, evidence propagation and held-out candidate comparison for multi-experiment research runs. Includes a standard-library state manager and guidance for the RUC-NLPIR Arbor CLI.

Searches and reads biomedical papers, FDA/PMDA/EMA documents, clinical trials, and protein records with the GXL Paperclip CLI and Python SDK. Supports source-scoped search, full-text grep, metadata SQL, map/reduce extraction, figure analysis, optional repositories and claim verification, and line-pinned citations. Use when a task names GXL paperclip, asks to install or authenticate it, or requests literature retrieval and evidence extraction through Paperclip.

Prepares evidence-bounded, constructive peer-review drafts and structured manuscript assessments. Supports authorized review of scientific manuscripts, protocols, preprints, or research proposals; reporting-guideline selection; claim–evidence checks; methods, statistics, reproducibility, ethics, figure/table, and citation critique; or revision-response planning.

Uses Parallel CLI for web search, URL extraction, deep research, structured data enrichment, entity discovery, and recurring web monitoring. Best for requests that explicitly need current web evidence, academic-source discovery, repeated entity lookups, exhaustive reports, or ongoing change tracking.

Applies the DHDNA framework as an exploratory rubric for reasoning and writing patterns in supplied text. Used for explicit requests for DHDNA, cognitive-style reflection, a thinking-pattern profile, or comparisons of textual reasoning. Scores describe evidence in the sample, not validated psychological traits or personal identity.

Converts neuroscience acquisition data to Neurodata Without Borders files with NeuroConv and PyNWB, preserves metadata and timebases, checks evidence-based clock alignment, and produces schema validation, NWB Inspector findings and round-trip checks. Use for NWB conversion and synchronization of planar single-channel two-photon TIFF imaging plus timestamped behavioral position CSV; this skill does not perform spike sorting or claim tested support for arbitrary acquisition formats.

Supports structured what-if scenario analysis for research planning, experimental contingencies, and scientific project decisions. Explores favorable, reference, adverse, wild-card, contrarian, and second-order scenarios with explicit assumptions, evidence, and decision triggers. Use to stress-test a research plan under uncertainty; scenario narratives do not estimate causal effects or calibrated forecast probabilities.

Compiles current scholarly evidence for a scientific manuscript or research brief when the user explicitly asks to gather literature, references, background evidence, competing findings, or a manuscript research packet. Uses Parallel Search by default, Parallel Extract for source retrieval, Parallel Research for explicitly deep/exhaustive work, optional explicit Parallel Chat, and optional Perplexity only when requested or allowed as a failure fallback.