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SCENIC (pySCENIC) — gene regulatory network inference and transcription factor regulon analysis for single-cell RNA-seq data. Infers TF-target gene networks using GRNBoost2/GENIE3, refines regulons vi

3 shared topics • 2 shared operations

scJoint integrates atlas-scale single-cell RNA-seq and scATAC-seq data using transfer learning. Transfers cell type labels from annotated RNA datasets to unannotated ATAC datasets via joint neural net

3 shared topics • 1 shared operation

Use this skill for SCpubr workflows producing publication-quality visualizations of single-cell RNA-seq data in R. Covers UMAP/dimensionality reduction plots, violin plots, feature plots, dot plots, h

3 shared topics • 1 shared operation

Use when working with UCell, an R/Bioconductor package for gene-set enrichment scoring in single-cell RNA-seq data using the AUCell rank-based method. Computes per-cell UCell scores for custom gene si

3 shared topics • 1 shared operation

Decoupler -- Python framework for inferring biological activities from omics data. Estimates transcription factor (TF) activities, pathway activities, and ligand-receptor interactions from gene expres

3 shared topics