10XGenomics / cellranger-atacView external linksLinks
☆23Jan 20, 2021Updated 5 years ago
Alternatives and similar repositories for cellranger-atac
Users that are interested in cellranger-atac are comparing it to the libraries listed below
Sorting:
- ☆19Jan 24, 2025Updated last year
- Non-official Git repository for R package cellrangerRkit (currently not available elsewhere; I'm not affiliated with 10x)☆19May 6, 2019Updated 6 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆41Jan 31, 2024Updated 2 years ago
- Adata Viewer: Head/Less/Shape h5ad file in terminal☆12Mar 19, 2025Updated 10 months ago
- Joint normalization of multiple Hi-C matrices, visualization and detection of differential chromatin interactions, supporting covariates.☆10Apr 22, 2022Updated 3 years ago
- Genome-wide contact analysis using sklearn☆72Mar 23, 2024Updated last year
- ☆12Jul 26, 2022Updated 3 years ago
- repo to explore spatial data in R/Bioconductor and Python☆12Dec 3, 2019Updated 6 years ago
- chia pet analysis software☆25Jan 17, 2019Updated 7 years ago
- ☆12Aug 9, 2024Updated last year
- General analysis of HiC data, including compartment A/B, domains and loops.☆14Feb 17, 2023Updated 2 years ago
- 🍹This repo includes the scripts and analysis notebook for the Droplet Hi-C manuscript☆15Feb 6, 2026Updated last week
- Tools for working FASTQ files from sequencers (R1/R2/I1/I2)☆12Dec 6, 2024Updated last year
- pipeline for demultiplex and align both ATAC and RNA data generated in SHARE-seq☆16Jun 20, 2022Updated 3 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Aug 28, 2015Updated 10 years ago
- SIP: Significant Interaction Peak caller☆15Apr 24, 2025Updated 9 months ago
- Single-Cell Spatial Explorer☆15Dec 14, 2023Updated 2 years ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆120Jan 15, 2023Updated 3 years ago
- Hi-C data processing pipeline☆38Feb 27, 2024Updated last year
- Rust wrapper for STAR aligner☆19Updated this week
- ☆19Dec 15, 2023Updated 2 years ago
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 2 years ago
- Paired Insertion Counting for snATAC-seq data☆19May 12, 2025Updated 9 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated last year
- Nascent Transcription Processing Pipeline☆22Nov 20, 2025Updated 2 months ago
- R package (compatible with SCope) to create generic .loom files and extend them with other data e.g.: SCENIC regulons, Seurat clusters an…☆47Apr 8, 2022Updated 3 years ago
- ☆19Jun 8, 2023Updated 2 years ago
- ☆20Jan 1, 2022Updated 4 years ago
- Client for the Bioconductor AnnotationHub web resource☆20Oct 30, 2025Updated 3 months ago
- Rust wrapper of the BWA C API☆18May 23, 2025Updated 8 months ago
- SIMBA: SIngle-cell eMBedding Along with features☆20Jan 6, 2026Updated last month
- ☆19May 27, 2025Updated 8 months ago
- BISulfite-seq CUI Toolkit☆26Feb 4, 2026Updated last week
- Modular job submitter for arbitrary pipelines or commands.☆24Nov 6, 2025Updated 3 months ago
- ☆18Mar 12, 2024Updated last year
- Harmony framework for connecting scRNA-seq data from discrete time points☆53Dec 1, 2025Updated 2 months ago
- 10x Genomics Single Cell Analysis☆444Dec 10, 2025Updated 2 months ago
- Comparison of single-cell normalization methods using multiple datasets with ground-truth labels☆19Dec 2, 2019Updated 6 years ago
- A Python implementation for BH-FDR and HiCCUPS☆53Dec 29, 2025Updated last month