10x Genomics Single Cell Analysis
☆479Aug 17, 2026Updated last month
Alternatives and similar repositories for cellranger
Users that are interested in cellranger are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Single-cell analysis in Python. Scales to >100M cells.☆2,563Updated this week
- R toolkit for single cell genomics☆2,801Updated this week
- Fast, sensitive and accurate integration of single-cell data with Harmony☆672Jun 5, 2026Updated 3 months ago
- Interfaces for HDF5-based Single Cell File Formats☆177Nov 4, 2023Updated 2 years ago
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,594Dec 11, 2022Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,860Sep 7, 2026Updated 2 weeks ago
- RNA-seq aligner☆2,251Mar 18, 2025Updated last year
- Inferring CNV from Single-Cell RNA-Seq☆685Nov 14, 2025Updated 10 months ago
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc…☆220Updated this week
- R package for detecting doublets in single-cell RNA sequencing data☆566Mar 21, 2025Updated last year
- Detect doublets in single-cell RNA-seq data☆179Dec 29, 2020Updated 5 years ago
- RNA velocity estimation in Python☆177Oct 7, 2025Updated 11 months ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆548Jun 18, 2026Updated 3 months ago
- ☆467Updated this 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.
- ☆23Jan 20, 2021Updated 5 years ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆423Sep 12, 2026Updated last week
- Single-Cell Genotyping Tool☆219Oct 2, 2023Updated 2 years ago
- A package to help convert different single-cell data formats to each other☆470Feb 20, 2026Updated 7 months ago
- R toolkit for the analysis of single-cell chromatin data☆428Sep 11, 2026Updated last week
- Table of software for the analysis of single-cell RNA-seq data.☆344Updated this week
- Tools and methods for analysis of single cell assay data in R☆264Oct 17, 2025Updated 11 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆638Jun 26, 2025Updated last year
- A tool for semi-automatic cell type classification☆504May 22, 2026Updated 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.
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆498Apr 5, 2024Updated 2 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆932Updated this week
- A toolkit for single-cell immune profiling☆376Aug 14, 2026Updated last month
- Single-cell analysis methods in Rust☆34Jun 26, 2026Updated 2 months ago
- TCR and BCR assembly from RNA-seq data☆362Aug 27, 2026Updated 3 weeks ago
- Analysis Pipeline for Single Cell ATAC-seq☆321Apr 27, 2023Updated 3 years ago
- https://www.sc-best-practices.org☆1,270Aug 29, 2026Updated 3 weeks ago
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆347Jul 28, 2020Updated 6 years ago
- An interactive explorer for single-cell transcriptomics data☆788Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- MACS -- Model-based Analysis of ChIP-Seq☆784Updated this week
- RNA Velocity generalized through dynamical modeling☆512Feb 25, 2026Updated 6 months ago
- Detect doublets in single-cell RNA-seq data☆85Jul 3, 2019Updated 7 years ago
- Single-Cell RNA-seq pseudo-aligner☆53May 6, 2024Updated 2 years ago
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package☆128Sep 8, 2026Updated 2 weeks ago
- Batch balanced KNN☆180Oct 11, 2023Updated 2 years ago
- Scaling Single Cell Analysis to Millions of Cells☆305Jul 13, 2026Updated 2 months ago