celltypist-cell-annotation
CommunityAutomate cell type annotation for scRNA-seq.
Authorjaechang-hits
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the complex and time-consuming process of annotating cell types in single-cell RNA sequencing (scRNA-seq) data, enabling faster and more reproducible biological discoveries.
Core Features & Use Cases
- Automated Cell Type Annotation: Utilizes pre-trained logistic regression models to assign cell type labels to individual cells.
- Majority Voting: Provides cluster-level consensus labels for more biologically coherent annotations.
- Use Case: Annotate immune cells in a PBMC dataset using a standardized pan-immune model, quickly identifying major immune lineages and subtypes for downstream analysis.
Quick Start
Annotate the preprocessed AnnData object 'preprocessed_pbmc.h5ad' using the 'Immune_All_Low.pkl' model with majority voting.
Dependency Matrix
Required Modules
celltypistscanpyanndata
Components
scriptsreferences
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: celltypist-cell-annotation Download link: https://github.com/jaechang-hits/SciAgent-Skills/archive/main.zip#celltypist-cell-annotation Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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