Rank-based signature enrichment analysis for single-cell data

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Documentation for package ‘UCell’ version 2.13.1

• 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