pycistarget-motif-enrichment
CommunityMotif enrichment to define scATAC cistromes.
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Motif enrichment analysis on scATAC-seq region sets to identify transcription factor binding sites and derive cistromes for downstream SCENIC+ GRN inference.
Core Features & Use Cases
- Two approaches: cisTarget (NES-based) and DEM (Wilcoxon-based) to compute motif enrichments from region sets derived from pycisTopic.
- Cistrome extraction: Generates TF-bound region sets (cistromes) for downstream regulatory network inference with SCENIC+.
- SCENIC+ integration ready: Structured results suitable for standalone SCENIC+ workflows or Snakemake pipelines with explicit database and annotation guidelines.
Quick Start
Run pycistarget motif enrichment on your ATAC region sets to produce cistromes for downstream SCENIC+ analysis.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
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Please help me install this Skill: Name: pycistarget-motif-enrichment Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#pycistarget-motif-enrichment Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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