R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
☆324Nov 1, 2022Updated 3 years ago
Alternatives and similar repositories for SoupX
Users that are interested in SoupX are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Methods for detecting doublets in single-cell sequencing data☆247Feb 12, 2026Updated 2 months ago
- R package for detecting doublets in single-cell RNA sequencing data☆546Mar 21, 2025Updated last year
- R package for modeling single cell UMI expression data using regularized negative binomial regression☆258Jan 10, 2026Updated 3 months ago
- Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data☆152Feb 13, 2025Updated last year
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆392May 1, 2026Updated last week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆330Apr 23, 2024Updated 2 years ago
- NicheNet: predict active ligand-target links between interacting cells☆642Nov 12, 2025Updated 5 months ago
- TRAjectory-based Differential Expression analysis for SEQuencing data☆295Jun 17, 2025Updated 10 months ago
- AUCell: score single cells with gene regulatory networks☆191Mar 9, 2024Updated 2 years ago
- R package for integrating and analyzing multiple single-cell datasets☆429Feb 4, 2026Updated 3 months ago
- Clone of the Bioconductor repository for the SingleR package.☆202Apr 8, 2026Updated last month
- Inferring CNV from Single-Cell RNA-Seq☆663Nov 14, 2025Updated 5 months ago
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆241May 8, 2023Updated 3 years ago
- Fast Wilcoxon and auROC☆207Nov 8, 2024Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Color blindness friendly visualization of single-cell and bulk RNA-sequencing data☆215Dec 10, 2025Updated 4 months ago
- Easy single cell analysis platform for enrichment☆224Apr 3, 2026Updated last month
- Multi-sample multi-group scRNA-seq analysis tools☆228Apr 28, 2026Updated last week
- R package implementation of Milo for testing for differential abundance in KNN graphs☆432Updated this week
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 2 months ago
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆225Apr 26, 2026Updated 2 weeks ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆781Jan 6, 2024Updated 2 years ago
- LIANA: a LIgand-receptor ANalysis frAmework☆239Aug 7, 2024Updated last year
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆435Apr 11, 2026Updated 3 weeks ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆297Updated this week
- Detect doublets in single-cell RNA-seq data☆86Jul 3, 2019Updated 6 years ago
- A toolkit for single-cell immune profiling☆369Apr 24, 2026Updated 2 weeks ago
- Cell type prioritization in single-cell data☆140Mar 26, 2026Updated last month
- Detect doublets in single-cell RNA-seq data☆175Dec 29, 2020Updated 5 years ago
- R toolkit for single cell genomics☆2,721Updated this week
- Seurat meets tidyverse. The best of both worlds.☆166Mar 3, 2026Updated 2 months ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆171Jan 26, 2024Updated 2 years ago
- Interpretation of cell states using reference single-cell maps☆317Dec 19, 2025Updated 4 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Conversion between scRNA-seq objects☆207Apr 16, 2026Updated 3 weeks ago
- Analysis of cell-cell communication at single-cell resolution☆107Sep 10, 2024Updated last year
- High dimensional weighted gene co-expression network analysis☆472Mar 13, 2026Updated last month
- Fast, sensitive and accurate integration of single-cell data with Harmony☆648Updated this week
- ☆294Nov 10, 2024Updated last year
- R package to visualize gene expression data based on weighted kernel density estimation☆113Feb 6, 2026Updated 3 months ago
- Multi-subject Single Cell Deconvolution☆296Mar 4, 2024Updated 2 years ago