Cite Seq Collection

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“Deep probabilistic analysis of single-cell and spatial omics data”

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“muon is a multimodal omics Python framework”

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“scPerturb: A resource and a python/R tool for single-cell perturbation data”

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⚡Electric

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“Single cell analysis in the browser”

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“iCellR is an interactive R package designed to facilitate the analysis and visualization of high-throughput single-cell sequencing data. It supports a variety of single-cell technologies, including scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq, and Spatial Transcriptomics (ST).”

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“Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.”

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“Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).”

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“Normalize CITEseq Data”

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🔮Psychic

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“scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics”

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“A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits or in the MTX matrix file format powered by the R package Seurat.”