AN
数据与复现
AnnData
AnnData is a Python package for handling annotated data matrices, storing experimental measurements (X) alongside observ…
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数据与复现
SI
single2spatial-spatial-mapping
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Apply this skill when converting single-cell references into spatially resolved profiles. It follows [`t_single2spatial.ipynb`](../../omicverse_guide/docs/Tutorials-bulk2single/t_single2spatial.ipynb), demonstrating how Single2Spatial trains on PDAC scRNA-seq and Visium data, reconstructs spot-level proportions, and visualises marker expression.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/single-to-spatial-mapping
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 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
- Apply this skill when converting single-cell references into spatially resolved profiles. It follows t_single2spatial.ipynb，demonstrating how Single2Spatial trains on PDAC scRNA-seq 、 Visium data，reconstructs spot-level proportions，、 visualises marker expression。
- Load omicverse as ov，scanpy as sc，anndata，pandas as pd，numpy as np，、 matplotlib.pyplot as plt。
- Call ov.utils.ov_plot_set() (或 ov.plot_set() in older versions) to align plots ，支持 omicverse styling。
- Read processed matrices ，支持 pd.read_csv(...) then create AnnData objects (anndata.AnnData(raw_df.T))。
- Attach metadata：single_data.obs = pd.read_csv(...)[['Cell_type']] 、 spatial_data.obs = pd.read_csv(... ) containing coordinates 、 slide metadata。
原始文档
SKILL.md 摘录
Examples
- "Train Single2Spatial on PDAC scRNA-seq and Visium slides, then visualise REG1A and CLDN1 spatial expression."
- "Load a saved Single2Spatial checkpoint to regenerate spot-level cell-type proportions for reporting."
- "Plot reconstructed cell-type maps with omicverse palettes to compare against histology."
适用场景
- Use single2spatial-spatial-mapping ，用于 single-cell 或 spatial omics analysis。
- Apply single2spatial-spatial-mapping 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。
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