scrnametaboliclandscape
Installation
SKILL.md
ScrnaMetabolicLandscape Process Configuration
Purpose
Comprehensive metabolic landscape analysis pipeline for scRNA-seq data. This is an all-in-one process group performing complete metabolic pathway analysis including expression imputation, feature selection, pathway activity calculation, and heterogeneity analysis. Based on methodology from Xiao et al. (2019) Nature Communications.
Key difference from individual Metabolic processes*: ScrnaMetabolicLandscape runs multiple related metabolic analysis steps as a coordinated workflow. Use this for complete metabolic analysis pipeline. Use individual processes (MetabolicInput, MetabolicExprImputation, MetabolicFeatures, MetabolicPathwayActivity, MetabolicPathwayHeterogeneity) for fine-grained control or specific steps only.
When to Use
- Complete metabolic analysis workflow: Need all metabolic landscape analyses (imputation → activity → heterogeneity → features)
- Comprehensive metabolic profiling: Study metabolic heterogeneity across cell clusters or conditions
- Pathway-centric analysis: Have metabolic pathway gene sets (GMT files) and want to explore pathway activity
- Comparative metabolic analysis: Compare metabolic states across different cell types, treatments, or disease conditions
- Alternative to individual Metabolic processes*: Prefer this group for simplicity, individual processes for customization