4,420 skills found · Page 113 of 148
spencermarx / V3 Core ImplementationCore module implementation for claude-flow v3. Implements DDD domains, clean architecture patterns, dependency injection, and modular TypeScript codebase with comprehensive testing.
spencermarx / V3 DDD ArchitectureDomain-Driven Design architecture for claude-flow v3. Implements modular, bounded context architecture with clean separation of concerns and microkernel pattern.
spencermarx / V3 Deep IntegrationDeep agentic-flow@alpha integration implementing ADR-001. Eliminates 10,000+ duplicate lines by building claude-flow as specialized extension rather than parallel implementation.
spencermarx / V3 Performance OptimizationAchieve aggressive v3 performance targets: 2.49x-7.47x Flash Attention speedup, 150x-12,500x search improvements, 50-75% memory reduction. Comprehensive benchmarking and optimization suite.
spencermarx / project-board-syncSynchronize AI swarms with GitHub Projects for visual task management, progress tracking, and team coordination.
spencermarx / sparc-mcp♾️ MCP Integration - You are the MCP (Management Control Panel) integration specialist responsible for connecting to a...
spencermarx / V3 Memory UnificationUnify 6+ memory systems into AgentDB with HNSW indexing for 150x-12,500x search improvements. Implements ADR-006 (Unified Memory Service) and ADR-009 (Hybrid Memory Backend).
spencermarx / OCR Review-to-Approval LoopDrive a PR to an approved code review by looping OCR's multi-agent review and address steps. Runs /ocr:review then /ocr:address repeatedly until the review verdict is APPROVE, then one final /ocr:address for leftover suggestions, posting every review and every address round to the GitHub PR as comme…
jaechang-hits / plotly-interactive-visualizationInteractive visualization with Plotly. 40+ chart types (scatter, line, heatmap, 3D, geographic) with hover, zoom, pan. Two APIs: Plotly Express (DataFrame) and Graph Objects (fine control). For static publication figures use matplotlib; for statistical grammar use seaborn.
jaechang-hits / pymc-bayesian-modelingBayesian modeling with PyMC 5: priors, likelihood, NUTS/ADVI sampling, diagnostics (R-hat, ESS), LOO/WAIC comparison, prediction. Hierarchical, logistic, GP variants; predictive checks.
jaechang-hits / opencv-bioimage-analysisComputer vision for bio-image preprocessing, feature detection, real-time microscopy. Color conversion, morphology, contour/blob detection, template matching, optical flow on fluorescence/brightfield. 10-100× faster than pure Python via C++.
jaechang-hits / matplotlib-scientific-plottingLow-level Python plotting for scientific figures: publication-quality line, scatter, bar, heatmap, contour, 3D; multi-panel layouts; fine control of every element. PNG/PDF/SVG export. Use seaborn for quick stats, plotly for interactive.
jaechang-hits / plotly-interactive-plotsInteractive scientific visualization with Plotly. Two APIs: plotly.express (px) for one-liner DataFrame plots, plotly.graph_objects (go) for trace-level control. 40+ chart types with hover, zoom, pan, animation. Exports HTML or static PNG/SVG/PDF via kaleido.
jaechang-hits / arboreto-grn-inferenceGRN inference from expression via GRNBoost2 (gradient boosting) or GENIE3 (Random Forest). Load matrix, filter by TFs, infer TF-target-importance links, save network. Dask-parallelized to single-cell scale. Core SCENIC component.
jaechang-hits / homer-motif-analysisDe 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 (TSS distance, gene, repeat).
jaechang-hits / macs3-peak-callingPoisson-model peak caller for ChIP-seq/ATAC-seq BAMs. MACS3 callpeak finds enriched regions (TF sites or histone marks) vs input/IgG; outputs BED narrowPeak/broadPeak for motif analysis, annotation, and differential binding.
jaechang-hits / opentrons-protocol-apiPython API v2 for Opentrons OT-2/Flex liquid handlers: protocols as Python files with metadata and run(); control pipettes, labware, and modules (thermocycler, heater-shaker, magnetic, temperature). Simulate via opentrons_simulate then upload.
jaechang-hits / western-blot-quantificationProtocols and best practices for western blot quantification and analysis including band detection, normalization, and statistical methods.
jaechang-hits / sgrna-design-guideThree-tiered sgRNA design guide using validated Addgene sequences, CRISPick pre-computed datasets, or de novo design rules for CRISPR experiments
jaechang-hits / adaptyv-bioAPI + Python SDK for ordering cell-free protein expression and binding assays. Submit sequences for expression (10–100 µg), measure binding affinity (KD) against targets, track status, and retrieve results programmatically — no wet-lab setup.
jaechang-hits / aeonscikit-learn compatible Python toolkit for time series ML: classify, cluster, regress, segment, transform with 30+ algorithms (ROCKET, InceptionTime, KNN-DTW, HIVE-COTE, WEASEL). Handles panel, multivariate, and unequal-length series. Maintained successor to sktime.
jaechang-hits / dask-parallel-computingParallel/distributed computing for larger-than-RAM data. Components: DataFrames (parallel pandas), Arrays (parallel NumPy), Bags, Futures, Schedulers. Scales laptop to HPC cluster. For single-machine speed use polars; for out-of-core without cluster use vaex.
jaechang-hits / degenerate-input-filteringFilter degenerate, uninformative inputs before statistical tests: single-sequence alignments, empty files, constant features, zero-variance inputs, all-NaN columns. See nan-safe-correlation for NaN-aware correlation; statistical-analysis for test guidance.
jaechang-hits / geopandas-geospatialGeospatial vector analysis extending pandas. Read/write spatial formats (Shapefile, GeoJSON, GeoPackage, Parquet, PostGIS), CRS handling, geometric ops (buffer, simplify, centroid, affine), spatial analysis (joins, overlays, dissolve, clipping, distance), visualization (choropleth, interactive maps,…
jaechang-hits / networkx-graph-analysisGraph and network analysis toolkit. Four graph types (directed, undirected, multi-edge), centrality, shortest paths, community detection, generators, I/O (GraphML, GML, edge list), matplotlib viz. For large graphs (100K+ nodes) use igraph or graph-tool; for GNNs use PyG.
jaechang-hits / neurokit2Python toolkit for neurophysiological signal processing: ECG (HR, HRV, R-peaks), EEG (complexity, PSD), EMG (activation onset), EDA/GSR (SCR decomposition), PPG, and RSP. Includes synthetic signal simulation.
jaechang-hits / pymatgenPython Materials Genomics library for structure analysis, thermodynamics, and electronic properties. Parse/create crystal structures (CIF, POSCAR), query Materials Project for DFT-computed properties, analyze phase and Pourbaix diagrams, compute XRD patterns, generate DFT inputs for VASP, Quantum ES…
jaechang-hits / pymooPython framework for single- and multi-objective optimization with evolutionary algorithms. Define vectorized objectives and constraints; solve with NSGA-II, NSGA-III, MOEA/D, GAs, or differential evolution. Analyze Pareto fronts, visualize trade-offs, customize operators and callbacks.
jaechang-hits / simpy-discrete-event-simulationProcess-based discrete-event simulation. Model queues, shared resources, timed events: manufacturing, service ops, network traffic, logistics. Processes are Python generators yielding events. Resources: capacity-limited (Resource/Priority/Preemptive), bulk (Container), objects (Store, FilterStore).
jaechang-hits / zarr-pythonChunked N-D arrays with compression and cloud storage. NumPy-style indexing. Backends: local, S3, GCS, ZIP, memory. Dask/Xarray integration for parallel and labeled computation. For lineage use lamindb; for labeled arrays use xarray.
