wheaton5 / souporcellView external linksLinks
Clustering scRNAseq by genotypes
☆193Nov 11, 2025Updated 3 months ago
Alternatives and similar repositories for souporcell
Users that are interested in souporcell are comparing it to the libraries listed below
Sorting:
- Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…☆41Feb 8, 2023Updated 3 years ago
- A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…☆58May 5, 2021Updated 4 years ago
- Demultiplexing pooled scRNA-seq data with or without genotype reference☆96Apr 11, 2025Updated 10 months ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆312Nov 1, 2022Updated 3 years ago
- Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data☆41Nov 18, 2021Updated 4 years ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆376Jul 30, 2025Updated 6 months ago
- Genetic multiplexing of barcoded single cell RNA-seq☆132Jul 1, 2024Updated last year
- Clone identification from single-cell data☆61Nov 10, 2022Updated 3 years ago
- ☆11May 30, 2023Updated 2 years ago
- Single-Cell Genotyping Tool☆215Oct 2, 2023Updated 2 years ago
- R package for detecting doublets in single-cell RNA sequencing data☆523Mar 21, 2025Updated 10 months ago
- Efficient genotyping bi-allelic SNPs on single cells☆157Oct 30, 2025Updated 3 months ago
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆218Feb 26, 2024Updated last year
- A package to help convert different single-cell data formats to each other☆455Feb 28, 2024Updated last year
- Methods for detecting doublets in single-cell sequencing data☆230Updated this week
- Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).☆87Dec 4, 2025Updated 2 months ago
- Automated cell type classification☆116Jan 3, 2025Updated last year
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆407Aug 22, 2025Updated 5 months ago
- scover☆24Nov 3, 2023Updated 2 years ago
- Panoramic stitching of single cell data☆295Jul 14, 2025Updated 7 months ago
- Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome☆202Feb 4, 2026Updated last week
- A Bayesian model for compositional single-cell data analysis☆188Jan 13, 2026Updated last month
- software to detect doublets☆96Dec 28, 2024Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆615Nov 12, 2025Updated 3 months ago
- Reference mapping for single-cell genomics☆398Dec 2, 2025Updated 2 months ago
- Convert between AnnData and SingleCellExperiment☆143Updated this week
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆144Apr 5, 2024Updated last year
- Metacell - Single-cell mRNA Analysis☆120Jan 26, 2025Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆414Sep 4, 2025Updated 5 months ago
- R package to visualize gene expression data based on weighted kernel density estimation☆112Feb 6, 2026Updated last week
- A tool for detecting somatic variants in single cell data☆216Sep 15, 2024Updated last year
- An R package designed to demultiplex cell hashing data☆31Updated this week
- CellRank: dynamics from multi-view single-cell data☆427Updated this week
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package☆124Updated this week
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc…☆200Jan 27, 2026Updated 2 weeks ago
- CONICS: COpy-Number analysis In single-Cell RNA-Sequencing☆76Feb 27, 2023Updated 2 years ago
- Spatial omics analysis toolbox☆360Updated this week
- Pileup biallelic SNPs from single-cell and bulk RNA-seq data☆83Jun 9, 2022Updated 3 years ago
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets☆246Aug 18, 2025Updated 5 months ago