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Claude Skills by FridrichMethod
github.com/FridrichMethod743 skills4 installs957 views
- Crispresso EditingQuantifies CRISPR editing outcomes with CRISPResso2 (Clement 2019 Nat Biotechnol) across Cas9-nuclease (indels, HDR), CBE and ABE base editors (target conversion + bystander), and prime editor (pegRNA-templated) modes. Covers single-amplicon (CRISPResso), multi-sample batch (CRISPRessoBatch), pooled-amplicon (CRISPRessoPooled), WGS off-target (CRISPRessoWGS), and sample-comparison (CRISPRessoCompare) workflows; quantification-window math that controls what is called edited; substitution-vs-in...Votes: 0GitHub stars: 13
- Cryoem Ai Drug Design AgentAI-powered integration of cryo-EM structural data with generative AI and molecular dynamics for structure-based drug design targeting flexible proteins and membrane complexes.Votes: 0GitHub stars: 13
- Ctdna Dynamics Mrd AgentAI-powered circulating tumor DNA dynamics analysis for molecular residual disease detection, treatment response monitoring, and early relapse prediction using liquid biopsy.Votes: 0GitHub stars: 13
- Customs Trade ComplianceCodified expertise for customs documentation, tariff classification, duty optimization, restricted party screening, and regulatory compliance across multiple jurisdictions. Informed by trade compliance specialists with 15+ years experience. Includes HS classification logic, Incoterms application, FTA utilization, and penalty mitigation. Use when handling customs clearance, tariff classification, trade compliance, import/export documentation, or duty optimization.Votes: 0GitHub stars: 13
- Cytokine Storm Analysis AgentAI-powered cytokine release syndrome (CRS) and cytokine storm analysis for prediction, monitoring, and management in immunotherapy and infectious disease.Votes: 0GitHub stars: 13
- Data JournalismAcquire, clean, analyze, verify, visualize, and explain data for journalism. Use for reproducible data reporting, statistical analysis, maps, or public methodology.Votes: 0GitHub stars: 13
- Data Quality FrameworksImplement data quality validation with Great Expectations, dbt tests, and data contracts. Use when building data quality pipelines, implementing validation rules, or establishing data contracts.Votes: 0GitHub stars: 13
- Data Visualization BiomedicalPublication-quality visualizations for biomedical and genomics data. Use when creating volcano plots, heatmaps, UMAP plots, dot plots, survival curves, forest plots, or multi-panel figures. Includes scanpy, matplotlib, seaborn, plotly workflows with journal-ready aesthetics and proper statistical annotations.Votes: 0GitHub stars: 13
- Data Visualization ExpertGenerate insightful, publication-quality visualizations from complex datasets.Votes: 0GitHub stars: 13
- Database MigrationExecute database migrations across ORMs and platforms with zero-downtime strategies, data transformation, and rollback procedures. Use when migrating databases, changing schemas, performing data transformations, or implementing zero-downtime deployment strategies.Votes: 0GitHub stars: 13
- Datamol CheminformaticsPythonic RDKit wrapper with sensible defaults for drug discovery. SMILES parsing, standardization, descriptors, fingerprints, similarity, clustering, diversity selection, scaffold analysis, BRICS/RECAP fragmentation, 3D conformers, and visualization. Returns native rdkit.Chem.Mol. Prefer datamol for standard workflows; use RDKit directly for advanced control.Votes: 0GitHub stars: 13
- Dbsnp QueriesResolves rsIDs, navigates RsMergeArch/SNPHistory merge chains, and converts between rsID, SPDI, HGVS, and VCF representations using the dbSNP Build 156 JSON architecture. Use when normalizing variant identifiers, joining variant databases by cluster ID, or tracking deprecated rsIDs through historical merges.Votes: 0GitHub stars: 13
- Dbsnp DatabaseUse when you want to look up, map, and search for short genetic variants (SNPs, indels) in NCBI's dbSNP database. Resolves between rsIDs, genomic coordinates in VCF format, and HGVS strings. For an rsID, returns variant type, gene associations, clinical significance, allele frequencies, and genomic coordinates (GRCh38).Votes: 0GitHub stars: 13
- Dbt Transformation PatternsMaster dbt (data build tool) for analytics engineering with model organization, testing, documentation, and incremental strategies. Use when building data transformations, creating data models, or implementing analytics engineering best practices.Votes: 0GitHub stars: 13
- De ResultsExtracts, filters, annotates, and exports differential expression results from DESeq2 or edgeR with proper handling of padj=NA (independent filtering, Cook's outliers, all-zero), multiple-testing correction choice (BH vs Storey q-value vs IHW vs lfsr), TREAT vs post-hoc fold-change filtering, p-value histogram diagnostics, gene annotation via org.db/biomaRt/mygene, GSEA preranked input, ORA background construction, replication reality (Schurch 2016 small-n result), and SABV/sex-stratified rep...Votes: 0GitHub stars: 13
- De VisualizationCreates DE-specific diagnostic and result visualizations using DESeq2/edgeR built-in functions and lightweight ggplot2 wrappers. Covers MA plot (with the shrunken-LFC compression effect), volcano (with the apeglm caveat that p-values are unchanged), PCA on VST/rlog (never raw counts), sample distance heatmaps, top-DE-gene heatmaps with the row-scaling trap, dispersion / BCV plot interpretation, p-value histogram diagnostics, plotCounts for individual genes, blind=TRUE vs FALSE rationale, and ...Votes: 0GitHub stars: 13
- Debugging StrategiesMaster systematic debugging techniques, profiling tools, and root cause analysis to efficiently track down bugs across any codebase or technology stack. Use when investigating bugs, performance issues, or unexpected behavior.Votes: 0GitHub stars: 13
- Deep Research SwarmMulti-agent research literature analysisVotes: 0GitHub stars: 13
- Deep Visual Proteomics AgentAI-driven integration of cellular imaging, laser microdissection, and ultra-sensitive mass spectrometry for spatially-resolved single-cell proteomics.Votes: 0GitHub stars: 13
- Defi Protocol TemplatesImplement DeFi protocols with production-ready templates for staking, AMMs, governance, and flash loans. Use when building decentralized finance applications or smart contract protocols.Votes: 0GitHub stars: 13
- Dependency UpgradeManage major dependency version upgrades with compatibility analysis, staged rollout, and comprehensive testing. Use when upgrading framework versions, updating major dependencies, or managing breaking changes in libraries.Votes: 0GitHub stars: 13
- Deployment Pipeline DesignDesign multi-stage CI/CD pipelines with approval gates, security checks, and deployment orchestration. Use this skill when designing zero-downtime deployment pipelines, implementing canary rollout strategies, setting up multi-environment promotion workflows, or debugging failed deployment gates in CI/CD.Votes: 0GitHub stars: 13
- Deseq2 BasicsPerforms differential expression on bulk RNA-seq count data with DESeq2's negative-binomial GLM, Wald and LRT testing, apeglm/ashr/normal LFC shrinkage, independent filtering, Cook's outlier handling, VST/rlog transforms, and design formulas including paired, batch, and interaction terms. Use when running bulk DE, choosing DESeq2 over edgeR or limma-voom, building a paired or interaction design, applying LFC shrinkage for ranking or GSEA, choosing Wald vs LRT, troubleshooting padj=NA, picking...Votes: 0GitHub stars: 13
- Design System PatternsBuild scalable design systems with design tokens, theming infrastructure, and component architecture patterns. Use when creating design tokens, implementing theme switching, building component libraries, or establishing design system foundations.Votes: 0GitHub stars: 13
- Differential AbundanceTests for differentially abundant proteins between conditions with limma/DEqMS empirical-Bayes moderation, proDA/msqrob2/MSstats missingness modeling, and Python Welch+BH alternatives. Frames missing values as left-censored MNAR (model, do not impute), makes variance moderation the load-bearing step at n=3-5, and prefers feature/peptide-level testing. Use when identifying proteins with significant abundance changes between experimental groups. Summarization and normalization mechanics are pro...Votes: 0GitHub stars: 13
- Differential AccessibilityIdentify differentially accessible chromatin regions across conditions using DiffBind, csaw, DESeq2, or edgeR. Use when comparing ATAC-seq accessibility between treatment groups, choosing between consensus-peak vs sliding-window approaches, picking the correct normalization (full library vs reads-in-peaks), correcting batch with SVA/RUVseq, or interpreting log2FC and FDR thresholds in a chromatin context.Votes: 0GitHub stars: 13
- Differential BindingIdentifies differentially bound ChIP-seq regions between conditions using DiffBind, csaw (sliding windows), DESeq2/edgeR/PyDESeq2 on count matrices, NormR (control-aware), or MAnorm2. Distinguishes three distinct normalization problems (composition bias, trended bias, global shifts) and matches each to its appropriate fix including spike-in scaling. Use when comparing ChIP-seq binding between experimental conditions, choosing normalization for global vs local changes, integrating spike-in dat...Votes: 0GitHub stars: 13
- Differential SplicingDetects differential alternative splicing between conditions using rMATS-turbo (binomial LRT on junction counts), leafcutter (Dirichlet-multinomial GLM on intron clusters), MAJIQ V3 deltapsi/HET (Bayesian posterior on LSVs), SUPPA2 (empirical-null on TPM-derived PSI), or Shiba (junction-imbalance-corrected, 2025 SOTA at low coverage). Reports FDR-corrected significance and delta PSI effect sizes. Tools differ in statistical model, annotation dependence, calibration regime, and replicate-count...Votes: 0GitHub stars: 13
- Digital ArchiveDigital archiving with AI enrichment and entity extraction. Use when building content archives or knowledge graphs.Votes: 0GitHub stars: 13
- Digital Twin Clinical AgentAI-powered patient digital twin creation for clinical trial simulation, treatment outcome prediction, and personalized medicine using real-world data and multi-omics integration.Votes: 0GitHub stars: 13
- Discernment NudgeAfter you give a substantive answer or draft that the user may act on — advice or recommendations, drafted artifacts such as goals, plans, pitches, proposals, or emails, estimates or projections, analysis or interpretation of data, factual claims they may rely on, or a multi-step argument — invoke this skill BEFORE finalizing your reply and then, if it applies, append 2-3 short follow-up questions, each tied to something specific in what you just produced, that help the user check key facts, ...Votes: 0GitHub stars: 13
- Distributed TracingImplement distributed tracing with Jaeger and Tempo to track requests across microservices and identify performance bottlenecks. Use when debugging microservices, analyzing request flows, or implementing observability for distributed systems.Votes: 0GitHub stars: 13
- Dotnet Backend PatternsMaster C#/.NET backend development patterns for building robust APIs, MCP servers, and enterprise applications. Covers async/await, dependency injection, Entity Framework Core, Dapper, configuration, caching, and testing with xUnit. Use when developing .NET backends, reviewing C# code, or designing API architectures.Votes: 0GitHub stars: 13
- Drug Interaction CheckerChecks for potential drug-drug interactions (DDIs) between a list of medications.Votes: 0GitHub stars: 13
- Duplicate HandlingMark and remove PCR/optical duplicates using samtools fixmate and markdup. Use when preparing alignments for variant calling or when duplicate reads would bias analysis.Votes: 0GitHub stars: 13
- Edger BasicsPerforms differential expression on bulk RNA-seq count data with edgeR's negative-binomial GLM and quasi-likelihood F-test framework. Covers DGEList construction, filterByExpr, TMM/TMMwsp normalization, robust dispersion estimation, glmQLFit/glmQLFTest, TREAT for magnitude-bounded hypotheses, contrasts via no-intercept designs, voom and voomWithQualityWeights for heterogeneous samples, and the edgeR v4 bias-corrected APL changes. Use when running bulk DE with edgeR, choosing edgeR over DESeq2...Votes: 0GitHub stars: 13
- Editorial WorkflowManages newsroom editorial workflows. Use when tracking assignments, managing deadlines, or coordinating editorial calendars.Votes: 0GitHub stars: 13
- Ehr Fhir IntegrationProvides comprehensive tools for working with Electronic Health Records (EHR) using the HL7 FHIR standard.Votes: 0GitHub stars: 13
- Electron DevElectron desktop apps with React, TypeScript, and Vite. Use for IPC, window/tray, PTY terminals, WebRTC, and packaging.Votes: 0GitHub stars: 13
- Embl Ebi OlsQuery and search the EMBL-EBI Ontology Lookup Service (OLS) for biomedical ontology terms, definitions, and hierarchies across 250+ ontologies (e.g., GO, DOID, HP). Use when the user asks to search for terms, retrieve details, navigate hierarchies (parents, children, ancestors), look up properties and individuals, get autocomplete suggestions, or access ontology metadata and statistics.Votes: 0GitHub stars: 13
- Employment Contract TemplatesCreate employment contracts, offer letters, and HR policy documents following legal best practices. Use when drafting employment agreements, creating HR policies, or standardizing employment documentation.Votes: 0GitHub stars: 13
- Encode Ccres DatabaseQuery the ENCODE Registry of cis-Regulatory Elements (cCREs) via the SCREEN GraphQL API, or make custom queries to the ENCODE Portal REST API for experiments and files (ChIP-seq peaks, etc.). Use when you want to query regulatory annotations or raw experimental data across human cell types.Votes: 0GitHub stars: 13
- Energy ProcurementCodified expertise for electricity and gas procurement, tariff optimization, demand charge management, renewable PPA evaluation, and multi-facility energy cost management. Informed by energy procurement managers with 15+ years experience at large commercial and industrial consumers. Includes market structure analysis, hedging strategies, load profiling, and sustainability reporting frameworks. Use when procuring energy, optimizing tariffs, managing demand charges, evaluating PPAs, or developi...Votes: 0GitHub stars: 13
- Enrichment FoundationsChooses the enrichment generation before any tool runs, mapping the input shape to a method class - a pre-selected gene list plus a background to over-representation analysis (ORA, hypergeometric), a ranked statistic for all genes to gene set enrichment (GSEA), a signed signaling topology to pathway-topology (SPIA) - then making the null explicit (competitive vs self-contained, gene vs subject sampling) and running a trustworthiness checklist (testable-gene universe, FDR, redundancy collapse,...Votes: 0GitHub stars: 13
- Ensembl DatabaseQuery the Ensembl database to resolve gene, transcript, and protein IDs, fetch genomic or protein sequences, retrieve gene structures (exons), and get variant consequence and effect predictions (VEP). Use this skill as a primary ID translator, genomic sequence database and variant effect prediction tool.Votes: 0GitHub stars: 13
- Epidemiologist Analyst"Analyzes disease patterns and health events through epidemiological lens using surveillance systems,Votes: 0GitHub stars: 13
- Epigenetic ClocksComputes DNA methylation age (DNAm age) and pace of aging by applying frozen elastic-net epigenetic clocks to a clean beta matrix with methylclock, dnaMethyAge, or methylCIPHER. Covers the clock menu by question (chronological Horvath/Hannum/skin&blood; health-mortality PhenoAge/GrimAge; DunedinPACE pace; pediatric/gestational; mitotic epiTOC), age acceleration (EAA/IEAA/EEAA) as the real endpoint, the principal-component (PC) clock fix for the per-CpG reliability crisis, and EPICv2 clock-CpG...Votes: 0GitHub stars: 13
- Epigenomics Methylgpt AgentAI-powered DNA methylation analysis using MethylGPT foundation models for epigenomic profiling, differential methylation detection, and cancer epigenome characterization.Votes: 0GitHub stars: 13
- Error Handling PatternsMaster error handling patterns across languages including exceptions, Result types, error propagation, and graceful degradation to build resilient applications. Use when implementing error handling, designing APIs, or improving application reliability.Votes: 0GitHub stars: 13
- Esm"ESM protein language models for embeddings, sequence scoring, structure prediction, and binder design. Use this skill when: (1) Computing pseudo-log-likelihood (PLL) or mutation-effect scores, (2) Getting protein embeddings for clustering or filtering, (3) Predicting complex structures with ESMFold2, (4) Designing binders by inverting ESMFold2, (5) Filtering designs by sequence plausibility.Votes: 0GitHub stars: 13