# Rank-based signature enrichment analysis for single-cell data

## Documentation for package ‘UCell’ version 2.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

UCell-package | UCell: Robust and scalable single-cell gene signature scoring
AddModuleScore_UCell | Calculate module enrichment scores from single-cell data (Seurat interface)
calculate_Uscore | Calculate rankings and scores for query data and given signature set
check_genes | Check genes
check_signature_names | Check signature names and add standard names is missing
data_to_ranks_data_table | Calculate per-cell feature rankings
knn_smooth_scores | Smoothing scores by KNN
rankings2Uscore | Get signature scores from pre-computed rank matrix
sample.matrix | Sample dataset to test UCell installation
ScoreSignatures_UCell | Calculate module enrichment scores from single-cell data
SmoothKNN | Smooth signature scores by kNN
SmoothKNN.Seurat | Smooth signature scores by kNN
SmoothKNN.SingleCellExperiment | Smooth signature scores by kNN
split_data.matrix | Split data matrix into smaller sub-matrices ('chunks')
StoreRankings_UCell | Calculate and store gene rankings for a single-cell dataset
UCell | UCell: Robust and scalable single-cell gene signature scoring
u_stat | Calculate Mann Whitney U from a vector of ranks
u_stat_signature_list | Calculate U scores for a list of signatures, given a rank matrix