SArdkitK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchcheminformaticsdrug discoverymolecular modelingCheminformatics toolkit for fine-grained molecular control. SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure search, 2D/3D generation, similarity,...
SAresearch-grantsK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchcompliancegrant writingacademic writingSupports research proposal preparation and review for NSF, NIH, DOE, DARPA, and Taiwan NSTC, including opportunity-specific requirements, aims, review criteria, budgets, broader...
SAresearch-lookupK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchevidence synthesisliterature searchacademic referencesCompiles current scholarly evidence for a scientific manuscript or research brief when the user explicitly asks to gather literature, references, background evidence, competing...
SAscholar-evaluationK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchpeer reviewscholarly-evaluationresearch-assessmentProvides qualitative-first, evidence-traceable developmental review of scholarly works and audit low-stakes research-assessment rubrics with optional local quality controls. Never...
SAscientific-brainstormingK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchhypothesis generationscientific-ideationbrainstorming-facilitationFacilitates evidence-aware scientific ideation with independent generation, structured discussion, explicit assumptions, transparent evaluation, adversarial review, and decision...
SAscientific-critical-thinkingK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchcritical-analysisscientific-methodologyevidence-appraisalEvaluates scientific claims and evidence quality. Applies to experimental design validity, biases and confounders, statistical interpretation, evidence grading frameworks (GRADE,...
SAomero-integrationK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchscientific computingAPI clientdata exportInspects and automates microscopy data workflows against OMERO.server with omero-py, BlitzGateway, OMERO CLI, tables, annotations, ROIs, rendering, and documented OMERO.web APIs....
SAopen-notebookK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchREST APIpodcast generationself-hostedOrganizes research with the self-hosted Open Notebook alternative to NotebookLM. Supports source ingestion (PDFs, web pages, audio, video, and Office documents), cited document...
SApaper-lookupK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchliterature searchopen accessprovenanceSearches 18 scholarly APIs for papers, preprints, citations, open-access full text, repository records, and journal OA status, and returns results with reproducible provenance....
SApaperzillaK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchCLI toolliterature reviewacademic papersReads projects, searches project feeds, and retrieves recommendations and canonical papers in Paperzilla through the pz CLI. Supports recent recommendations, paper details,...
SAparallel-webK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchweb searchdata enrichmentdeep researchUses Parallel CLI for web search, URL extraction, deep research, structured data enrichment, entity discovery, and recurring web monitoring. Best for requests that explicitly need...
SApeer-reviewK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchreproducibilitypeer reviewreporting-guidelinesPrepares evidence-bounded, constructive peer-review drafts and structured manuscript assessments. Supports authorized review of scientific manuscripts, protocols, preprints, or...
SAphylogeneticsK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchbioinformaticsphylogeneticssequence alignmentBuilds and analyzes phylogenetic trees using MAFFT multiple sequence alignment, IQ-TREE maximum likelihood with ModelFinder and branch support, and FastTree approximate inference....
SAprimekgK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchbioinformaticsknowledge graphdata provenanceQueries a pinned Precision Medicine Knowledge Graph (PrimeKG) CSV for typed gene, drug, disease, and phenotype nodes, direct associations, disease context, and one- or two-hop...
SAprotocolsio-integrationK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchAPI integrationREST APIdata validationReads, validates, and safely exports protocols.io data with current official REST/MCP contracts, or creates non-executing mutation plans. The bundled client makes bounded...
SAlabarchive-integrationK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchAPI integrationscientific dataelectronic-lab-notebookIntegrates with the official LabArchives ELN REST-like API and Inventory API v1. Supports regional endpoint selection, signed-request construction, user authorization and UID...
SAmarket-research-reportsK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchcompetitive analysismarket sizingforecastingBuilds evidence-traceable market research reports and assumption-driven market sizing or forecast scenarios. Use for market definition, industry and customer evidence, competitive...
SAmedchemK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchcheminformaticsdrug discoverymolecular filteringApplies medicinal chemistry filters for compound triage, using drug-likeness rules (Lipinski, Veber, CNS), structural alert catalogs (PAINS, NIBR, ChEMBL), complexity metrics, and...
SAmolecular-dynamicsK-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchsimulationmolecular dynamicstrajectory analysisRuns and analyzes molecular dynamics simulations with OpenMM and MDAnalysis. Sets up protein/small molecule systems, defines force fields, runs energy minimization and production...
SAneurokit2K-Dense-AI-scientific-agent-skills#scientific-agent-skillsResearchbiosignal processingpython libraryreproducible-workflowsBuilds and audits reproducible NeuroKit2 research workflows for physiological time-series preprocessing, event/interval analysis, multimodal alignment, variability, and...