scvi-peakvi
CommunityCluster and batch-correct scATAC with PeakVI.
Data & Analytics#genomics#batch-correction#scvi-tools#scatac-seq#differential-accessibility#peakvi#latent-embedding
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
PeakVI addresses the challenge of clustering scATAC-seq data and comparing chromatin accessibility across batches, providing a probabilistic latent space that accounts for technical variation.
Core Features & Use Cases
- Standard scATAC-seq clustering and embedding with batch-correct latent space
- Differential accessibility analysis between cell populations
- Batch correction across scATAC experiments to enable integration of multiple datasets
- Scales to more than one million cells
Quick Start
Load your scATAC-seq AnnData, configure PeakVI with scvi-tools, and train the model to obtain the latent representation.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 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: scvi-peakvi Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#scvi-peakvi Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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