AN
数据与复现
AnnData
AnnData is a Python package for handling annotated data matrices, storing experimental measurements (X) alongside observ…
K-Dense-AI/claude-scientific-skills查看
数据与复现
SC
scvi-tools
维护者 K-Dense Inc. · 最近更新 2026年4月1日
scvi-tools is a comprehensive Python framework for probabilistic models in single-cell genomics. Built on PyTorch and PyTorch Lightning, it provides deep generative models using variational inference for analy.
原始来源
K-Dense-AI/claude-scientific-skills
https://github.com/K-Dense-AI/claude-scientific-skills/tree/main/scientific-skills/scvi-tools
- 维护者
- K-Dense Inc.
- 许可
- BSD-3-Clause license
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- scvi-tools是一个comprehensive Python 框架 ，用于 probabilistic models in single-cell genomics. Built on PyTorch 、 PyTorch Lightning，it provides deep generative models ，使用 variational inference ，用于 analyzing diverse single-cell data modalities。
- import scvi import scanpy as sc。
- adata = scvi.data.heart_cell_atlas_subsampled() sc.pp.filter_genes(adata，min_counts=3) sc.pp.highly_variable_genes(adata，n_top_genes=1200)。
原始文档
SKILL.md 摘录
When to Use This Skill
Use this skill when:
- Analyzing single-cell RNA-seq data (dimensionality reduction, batch correction, integration)
- Working with single-cell ATAC-seq or chromatin accessibility data
- Integrating multimodal data (CITE-seq, multiome, paired/unpaired datasets)
- Analyzing spatial transcriptomics data (deconvolution, spatial mapping)
- Performing differential expression analysis on single-cell data
- Conducting cell type annotation or transfer learning tasks
- Working with specialized single-cell modalities (methylation, cytometry, RNA velocity)
- Building custom probabilistic models for single-cell analysis
Core Capabilities
scvi-tools provides models organized by data modality:
1. Single-Cell RNA-seq Analysis
Core models for expression analysis, batch correction, and integration. See references/models-scrna-seq.md for:
- scVI: Unsupervised dimensionality reduction and batch correction
- scANVI: Semi-supervised cell type annotation and integration
- AUTOZI: Zero-inflation detection and modeling
- VeloVI: RNA velocity analysis
- contrastiveVI: Perturbation effect isolation
适用场景
- Use scvi-tools ，用于 single-cell 或 spatial omics analysis。
- Apply scvi-tools to 聚类，integration，或 trajectory workflows。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
相关技能
相关技能
AR
数据与复现
Arboreto
Arboreto is a computational library for inferring gene regulatory networks (GRNs) from gene expression data using parall…
K-Dense-AI/claude-scientific-skills查看
Cell segmentation from multiplexed tissue images. Covers deep learning (Cellpose, Mesmer) and classical approaches for n…
FreedomIntelligence/OpenClaw-Medical-Skills查看
Integrate multiple scRNA-seq samples/batches using Harmony, scVI, Seurat anchors, and fastMNN. Remove technical variatio…
FreedomIntelligence/OpenClaw-Medical-Skills查看