Results for “h5ad”

Single-cell RNA-seq analysis. Load .h5ad/10X data, QC, normalization, PCA/UMAP/t-SNE, Leiden clustering, marker genes, cell type annotation, trajectory, for scRNA-seq analysis.

Analyze single-cell RNA-seq data with Scanpy, covering quality control, normalization, clustering, marker gene identification, visualization, and trajectory analysis.

Análise de RNA-seq de célula única. Carregue dados .h5ad/10X, QC, normalização, PCA/UMAP/t-SNE, clustering Leiden, genes marcadores, anotação de tipo celular, trajetória, para análise de scRNA-seq.

Create, read, manipulate, and store annotated data matrices using the AnnData Python package, designed for single-cell genomics and general-purpose annotated data workflows.

Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

Read and write large cuPyNumeric arrays to HDF5 files using Legate's parallel, distributed HDF5 I/O.

This skill should be used when working with BMAD (BMad-CORE) v6-alpha projects. BMAD is a universal human-AI collaboration platform with specialized modules for software development (BMM), agent building (BMB), creative intelligence (CIS), and project management (BMD). Use this skill to understand agent workflows, command patterns, scale-adaptive methodology, and effective utilization of the four-phase development system.

Agent A5 - Paradigm & Worldview Advisor - Philosophical foundations for research design. Covers ontology, epistemology, axiology, and methodology alignment. Use when: establishing philosophical foundations, justifying methodological choices, writing positionality statements Triggers: paradigm, 패러다임, ontology, epistemology, worldview, 세계관, philosophical foundations, 철학적 기초

Digital pathology image processing toolkit for whole slide images (WSI). Use this skill when working with histopathology slides, processing H&E or IHC stained tissue images, extracting tiles from gigapixel pathology images, detecting tissue regions, segmenting tissue masks, or preparing datasets for computational pathology deep learning pipelines. Applies to WSI formats (SVS, TIFF, NDPI), tile-based analysis, and histological image preprocessing workflows.

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

Version 2.35.0 | PRD to Production | Zero Human Intervention > Research-enhanced: OpenAI SDK, DeepMind, Anthropic, AWS Bedrock, Agent SDK, HN Production (2025)

Simplest distributed training API. 4 lines to add distributed support to any PyTorch script. Unified API for DeepSpeed/FSDP/Megatron/DDP. Automatic device placement, mixed precision (FP16/BF16/FP8). Interactive config, single launch command. HuggingFace ecosystem standard.

Extract and preprocess tiles from whole-slide images (WSI) with histolab — OpenSlide-backed slide loading, tissue detection and masks, Random/Grid/Score tile extraction, and image/morphological filters for H&E preprocessing. Use when the user needs lightweight WSI slide preprocessing — building tile datasets for ML training, tissue segmentation, or quick tile-based inspection of histopathology slides. For end-to-end computational-pathology, deep-learning model training, nucleus segmentation, or multiplexed/spatial-proteomics (CODEX, Vectra) pipelines prefer alterlab-pathml instead. Part of the AlterLab Academic Skills suite.

Digital pathology image processing toolkit for whole slide images (WSI). Use this skill when working with histopathology slides, processing H&E or IHC stained tissue images, extracting tiles from gigapixel pathology images, detecting tissue regions, segmenting tissue masks, or preparing datasets for computational pathology deep learning pipelines. Applies to WSI formats (SVS, TIFF, NDPI), tile-based analysis, and histological image preprocessing workflows.

Multi-agent autonomous startup system for Claude Code. Triggers on "Loki Mode". Orchestrates 100+ specialized agents across engineering, QA, DevOps, security, data/ML, business operations, marketing, HR, and customer success. Takes PRD to fully deployed, revenue-generating product with zero human intervention. Features Task tool for subagent dispatch, parallel code review with 3 specialized reviewers, severity-based issue triage, distributed task queue with dead letter handling, automatic deployment to cloud providers, A/B testing, customer feedback loops, incident response, circuit breakers, and self-healing. Handles rate limits via distributed state checkpoints and auto-resume with exponential backoff. Requires --dangerously-skip-permissions flag.

Connects agents to the GSTD Grid via MCP tools for autonomous payments, task discovery, and shared knowledge storage.

Multi-agent autonomous startup system for Claude Code. Triggers on "Loki Mode". Orchestrates 100+ specialized agents across engineering, QA, DevOps, security, data/ML, business operations, marketing, HR, and customer success. Takes PRD to fully deployed, revenue-generating product with zero human intervention. Features Task tool for subagent dispatch, parallel code review with 3 specialized reviewers, severity-based issue triage, distributed task queue with dead letter handling, automatic deployment to cloud providers, A/B testing, customer feedback loops, incident response, circuit breakers, and self-healing. Handles rate limits via distributed state checkpoints and auto-resume with exponential backoff. Requires --dangerously-skip-permissions flag.

Runs an autonomous multi-agent software development pipeline that takes a PRD through to production with zero human intervention, using model-tiered agents, memory, and verification cycles.

Simplest distributed training API. 4 lines to add distributed support to any PyTorch script. Unified API for DeepSpeed/FSDP/Megatron/DDP. Automatic device placement, mixed precision (FP16/BF16/FP8). Interactive config, single launch command. HuggingFace ecosystem standard.

Bootstraps AGENTS.md and CLAUDE.md for AEM 6.5 LTS projects, tailored to project structure and detected add-ons.

Multi-agent autonomous startup system for Claude Code. Triggers on "Loki Mode". Orchestrates 100+ specialized agents across engineering, QA, DevOps, security, data/ML, business operations, marketing, HR, and customer success. Takes PRD to fully deployed, revenue-generating product with zero human intervention. Features Task tool for subagent dispatch, parallel code review with 3 specialized reviewers, severity-based issue triage, distributed task queue with dead letter handling, automatic deployment to cloud providers, A/B testing, customer feedback loops, incident response, circuit breakers, and self-healing. Handles rate limits via distributed state checkpoints and auto-resume with exponential backoff. Requires --dangerously-skip-permissions flag.

Connects agents to the GSTD Grid for decentralized compute, hive memory, and blockchain-based economic settlement via MCP tools.

Detect process injection techniques (T1055) including CreateRemoteThread, process hollowing, and DLL injection via Sysmon Event IDs 8 and 10 and EDR process telemetry.

Meta-Analysis Master with Data Integrity, Effect Size, Error Prevention & Sensitivity Multi-gate validation and workflow orchestration for meta-analysis. Absorbed C6 (Data Integrity Guard), C7 (Error Prevention Engine), B3 (Effect Size Extractor), E5 (Sensitivity Analysis - Meta) capabilities Triggers: meta-analysis, pooled effect, heterogeneity, forest plot, funnel plot, Hedges g, data integrity, effect size extraction, sensitivity analysis

AI-driven Game Development Studio (BMAD-GDS). Routes game projects through Pre-production, Design, Architecture, Production, and Game Testing phases using 6 specialized agents. Supports Unity, Unreal Engine, Godot, and custom engines.

Build and operate a Havoc C2 framework for authorized red-team engagements, including team server deployment, evasive Demon agent generation, and post-exploitation.

Version 2.35.0 | PRD to Production | Zero Human Intervention > Research-enhanced: OpenAI SDK, DeepMind, Anthropic, AWS Bedrock, Agent SDK, HN Production (2025)

Generates award-level UI with GSAP motion, bento grids, and Python-driven randomization for layout variety.