single-cell-atac-seq
PIASO: Precise Integrative Analysis of Single-cell Omics
Single-file format for single-cell multi-omics and spatial transcriptomics — matrices, metadata, embeddings, fragments and provenance in one SQLite-backed .cytome file, with SQL metadata queries and genomic range indexes.
Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.
Accurate and fast cell marker gene identification with COSG
Individual cell-based differential transcriptomic analysis across conditions
