Formal game theory for advisory file claims and repeated agent interactions. Analyze Nash equilibria in claim signaling games, apply the folk theorem to sustain cooperation under…
Manage multi-agent orchestrator for Claude Code. Use when user mentions gastown, gas town, gt commands, bd commands, convoys, polecats, crew, rigs, slinging work, multi-a — from…
Manage multi-agent orchestrator for Claude Code. Use when user mentions gastown, gas town, gt commands, bd commands, convoys, polecats, crew, rigs, slinging work, multi-a — from…
Generates complete phenotype-scoring bioinformatics research designs for any disease context and any user-defined phenotype, pathway, process, signature, or molecular pro — from…
Анализирует генетические данные пользователя из VCF файла. Используй когда пользователь спрашивает о своей генетике, наследственных признаках, предрасположенностях, метаболизме…
End-to-end genome assembly workflow from reads to polished assembly with QC. Supports short reads (SPAdes), long reads (Flye), and hybrid approaches.
Generate genome browser visualizations using pyGenomeTracks or IGV batch scripting for publication figures.
Compare your genome to George Church (PGP-1) and estimate ancestry composition via IBS and EM admixture
Create genome browser-style visualizations showing multiple data tracks (coverage, peaks, genes) using pyGenomeTracks, Gviz, and IGV.
Patterns for building robust, reproducible genomics analysis pipelines. Covers workflow managers, NGS data processing, variant calling, RNA-seq, and common bioinformatics…
Bengio's GFlowNets: Generative Flow Networks that sample proportionally to reward. Diversity over maximization for causal discovery and molecule design.
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST searches, AlphaFold structures, enrichment analysis.
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST searches, AlphaFold structures, enrichment analysis.
CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr,…
Design guide RNAs for CRISPR-Cas9/Cas12a experiments using CRISPRscan and local scoring algorithms. Score guides for on-target activity using Rule Set 2 and Azimuth model — from…
Parse, query, and convert GTF and GFF3 annotation files. Extract gene, transcript, and exon coordinates using gffread, gtfparse, and gffutils.
End-to-end GWAS workflow from VCF to association results. Covers PLINK QC, population structure correction, and association testing for case-control or quantitative trait — from…
Harmony batch correction for scRNA-seq and other omics. Removes batch effects from PCA embeddings while preserving biology. Run after PCA, before UMAP.
Résume prudemment des articles, recommandations ou contenus médicaux. À utiliser quand l'utilisateur demande une synthèse scientifique, une revue rapide, ou veut comprend — from…
Build, evaluate, and document per-measure HEDIS extraction pipelines (NLP engineering, not chart review).
Detect horizontal gene transfer (HGT / LGT) using compositional methods (GC%, codon usage, tetranucleotide z-scores via SIGI-HMM, AlienHunter, IslandViewer 4, IslandPath- — from…
De novo and known TF motif enrichment in ChIP-seq/ATAC-seq peaks via HOMER. findMotifsGenome.pl finds over-represented patterns vs background; annotatePeaks.pl assigns context…
Implement a generative diffusion model (DDPM or score-based) with noise scheduling, U-Net architecture, training loop, and sampling procedures including DDIM acceleration.
Systematically interpret nuclear magnetic resonance spectra (1H, 13C, DEPT, and 2D experiments) to elucidate molecular structure.
Structures microbiology result interpretation with susceptibility patterns and resistance mechanisms.
Structures molecular test interpretation including NGS panels, FISH, and PCR-based assays. Use when interpreting molecular results, reporting genetic variants, or documenting…
Queries JGI Lakehouse (Dremio) for genomics metadata from GOLD, IMG, Mycocosm, Phytozome. Downloads genome files from JGI filesystem using IMG taxon OIDs.
Recommends target journals for manuscript submission by analyzing the paper topic/abstract and the journal distribution of similar PubMed literature; use when users ask for…
Julia package equivalents for 137 K-Dense-AI scientific skills. Maps Python bioinformatics, chemistry, ML, quantum, and data science packages to native Julia ecosystem.
初中生物考试复习 Skill是面向中考复习、考前冲刺的产品级 Hermes Skill，年级、册别、单元、知识点和难度通过参数传入。 Workflow: junior_biology_exam_review.run.
初中生物快速巩固 Skill是面向每日打卡、同步巩固的产品级 Hermes Skill，年级、册别、单元、知识点和难度通过参数传入。 Workflow: junior_biology_quick_practice.run.
Creates reproducible Jupyter notebooks for bioinformatics analysis with parameterization using papermill.
Multi-step KEGG bioinformatics workflows — pathway enrichment from gene lists, drug-target investigation, cross-species metabolic comparison, and compound-reaction network…
Open-source FAIR biology data framework. Version artifacts (AnnData, DataFrame, Zarr), track lineage, validate via ontologies (Bionty), query datasets.
Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy serverless workflows, LatchFile/LatchDir, Nextflow/Snakema — from…
Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy serverless workflows, LatchFile/LatchDir, Nextflow/Snakema — from…
Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy serverless workflows, LatchFile/LatchDir, Nextflow/Snakema — from…
Rewrites technical research content into a structured lay summary that cross-disciplinary teams can quickly understand and act on.
Generate a dedicated Obsidian learning vault for any certification, course, or study goal. Creates structured notes with domains, concepts, lessons, scenarios, MoCs, dataview…
Query PubMed and scientific databases for protocols, analyze biological data with Biopython, handle HIPAA-compliant data.
Use this bioinformatics data analysis skill to construct a database-driven lncRNA-mRNA regulatory network from target lncRNA and/or gene lists by projecting shared miRNA evidence…
Run bioinformatics analyses using Lobster AI - single-cell RNA-seq, bulk RNA-seq, literature mining, dataset discovery, quality control, and visualization.
Structures trial budget development with per-patient costs, site fees, and sponsor negotiations. Use when budgeting clinical trials, negotiating site contracts, or tracking…
Applies GCP/ICH principles to clinical research operations with compliance monitoring. Use when ensuring GCP compliance, training on ICH guidelines, or auditing research practices.
Plan molecular dynamics post-processing for materials simulations, including RDF, MSD and diffusion, VACF/VDOS, coordination numbers, bond-angle distributions, stress-strain…
Use medical cv resume builder for academic writing workflows that need structured execution, explicit assumptions, and clear output boundaries.
Matches a user’s biomedical research direction, disease problem, study aim, data modality, and resource constraints to the most relevant recent algorithms and method papers.
Identifies real, evidence-audited, topic-specific research gaps in medical research by first retrieving and verifying literature from trusted sources, then mapping the current…
Résume prudemment des articles, recommandations ou contenus médicaux. À utiliser quand l'utilisateur demande une synthèse scientifique, une revue rapide, ou veut comprend — from…
Query 14+ biomedical databases for drug repurposing, target discovery, clinical trials, and literature research.
Medical literature search strategy generator. Given a user's natural-language description (e.g., meta-analysis topic, PICOS elements, research question), automatically extract…
Battle-tested PyTorch training recipes for all domains — LLMs, vision, diffusion, medical imaging, protein/drug discovery, spatial omics, genomics.
Run and analyze molecular dynamics simulations with OpenMM and MDAnalysis. Set up protein/small molecule systems, define force fields, run energy minimization and production MD,…
Generates academic reviews for molecules in diseases using PubMed research. Invoke when user needs biomedical literature review with Vancouver citation format.
Molecular featurization for ML (100+ featurizers). ECFP, MACCS, descriptors, pretrained models (ChemBERTa), convert SMILES to features, for QSAR and molecular ML.
Molecular featurization for ML (100+ featurizers). ECFP, MACCS, descriptors, pretrained models (ChemBERTa), convert SMILES to features, for QSAR and molecular ML.
Molecular featurization hub (100+ featurizers) for ML. SMILES to fingerprints (ECFP, MACCS, MAP4), descriptors (RDKit 2D, Mordred), pretrained embeddings (ChemBERTa, GIN,…
Retrieve quantitative phenotypes across inbred mouse strains from MPD: metabolic, behavioral, physiological traits.
Aggregates QC from 150+ bioinformatics tools into one interactive HTML report. Scans FastQC, samtools, STAR, HISAT2, Trim Galore, featureCounts, Kallisto, Salmon, Picard, GATK…
Per-feature NaN-safe Spearman/Pearson correlation across many features (genes, proteins, variants) with missing values.