10x Genomics Single Cell Analysis
☆467Dec 10, 2025Updated 6 months ago
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.☆2,489Updated this week
- R toolkit for single cell genomics☆2,746May 29, 2026Updated 2 weeks ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆656Jun 5, 2026Updated last week
- Interfaces for HDF5-based Single Cell File Formats☆175Nov 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…☆1,568Dec 11, 2022Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,748Jun 6, 2026Updated last week
- Inferring CNV from Single-Cell RNA-Seq☆674Nov 14, 2025Updated 6 months ago
- RNA-seq aligner☆2,202Mar 18, 2025Updated last year
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc…☆207Updated this week
- R package for detecting doublets in single-cell RNA sequencing data☆548Mar 21, 2025Updated last year
- ☆454May 26, 2026Updated 2 weeks ago
- Detect doublets in single-cell RNA-seq data☆177Dec 29, 2020Updated 5 years ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆547Jun 1, 2026Updated last week
- RNA velocity estimation in Python☆176Oct 7, 2025Updated 8 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.
- Single-Cell Genotyping Tool☆218Oct 2, 2023Updated 2 years ago
- ☆23Jan 20, 2021Updated 5 years ago
- Single-cell analysis methods in Rust☆35Nov 4, 2025Updated 7 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆400May 6, 2026Updated last month
- R toolkit for the analysis of single-cell chromatin data☆417Updated this week
- Tools and methods for analysis of single cell assay data in R☆264Oct 17, 2025Updated 7 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆614Jun 26, 2025Updated 11 months ago
- Table of software for the analysis of single-cell RNA-seq data.☆339Updated this week
- A tool for semi-automatic cell type classification☆487May 22, 2026Updated 3 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆486Apr 5, 2024Updated 2 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆890Updated this week
- A toolkit for single-cell immune profiling☆369May 12, 2026Updated last month
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 3 years ago
- TCR and BCR assembly from RNA-seq data☆353Updated this week
- Single-Cell RNA-seq pseudo-aligner☆52May 6, 2024Updated 2 years ago
- https://www.sc-best-practices.org☆1,206Updated this week
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆338Jul 28, 2020Updated 5 years ago
- Detect doublets in single-cell RNA-seq data☆86Jul 3, 2019Updated 6 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- RNA Velocity generalized through dynamical modeling☆504Feb 25, 2026Updated 3 months ago
- An interactive explorer for single-cell transcriptomics data☆775Updated this week
- MACS -- Model-based Analysis of ChIP-Seq☆776May 6, 2026Updated last month
- R package implementation of Milo for testing for differential abundance in KNN graphs☆434May 11, 2026Updated last month
- Batch balanced KNN☆178Oct 11, 2023Updated 2 years ago
- 10x Genomics Linked-Read Alignment, Variant Calling, Phasing, and Structural Variant Calling☆33Jul 31, 2020Updated 5 years ago
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package☆127Updated this week