scDblFinder

scDblFinder detects and handles doublets and multiplets in single-cell sequencing data.

Key Features:

• Fast and comprehensive doublet detection: scDblFinder implements a fast, flexible and accurate Bioconductor-based method for doublet detection.
• Multiple detection methods: The package gathers various methods including those formerly found in the scran package, the scDblFinder method, and a reimplementation of the Amulet detection method.
• Cross-modality support: scDblFinder detects doublets in both single-cell RNA sequencing and single-cell ATAC-seq data.
• Heterotypic doublet identification: scDblFinder accurately identifies most heterotypic doublets even in complex datasets.

Scientific Applications:

• Single-cell RNA-seq doublet detection: scDblFinder identifies doublets in single-cell RNA sequencing data to prevent artifactual findings.
• Single-cell ATAC-seq doublet detection: scDblFinder detects doublets in single-cell accessibility (ATAC) sequencing data through the reimplemented Amulet method.
• Doublet enrichment analysis: scDblFinder supports observations and analysis of doublet formation, detection, and enrichment patterns.

Methodology:

The scDblFinder method builds on the strengths of existing doublet detection approaches. The package includes a reimplementation of the Amulet detection method for single-cell ATAC-seq data.