Additional code and analysis from the single-cell integration benchmarking project
☆71Dec 19, 2022Updated 3 years ago
Alternatives and similar repositories for scib-reproducibility
Users that are interested in scib-reproducibility are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆82Jan 23, 2025Updated last year
- Benchmarking analysis of data integration tools☆408Sep 17, 2025Updated 6 months ago
- ☆29Sep 4, 2023Updated 2 years ago
- The million-scale method for single-cell analysis☆10Jul 6, 2023Updated 2 years ago
- Pipeline framework for iteratively and reproducibly building and evaluating single cell atlases☆52Mar 19, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆66Jul 13, 2023Updated 2 years ago
- Accelerated, Python-only, single-cell integration benchmarking metrics☆89Mar 17, 2026Updated last week
- Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas☆41Jan 6, 2021Updated 5 years ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆59Aug 21, 2023Updated 2 years ago
- ☆17Nov 13, 2021Updated 4 years ago
- ☆33May 19, 2025Updated 10 months ago
- ☆12Nov 7, 2025Updated 4 months ago
- Reference mapping for single-cell genomics☆400Dec 2, 2025Updated 3 months ago
- ☆12Jun 11, 2023Updated 2 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.
- ☆26Apr 3, 2019Updated 6 years ago
- ☆21Dec 23, 2024Updated last year
- A clustering algorithm that can perform internal validation inspired by forest fire dynamics and self-organized criticality☆18May 18, 2022Updated 3 years ago
- tutorials for spateo package☆20Dec 25, 2024Updated last year
- Integrating temporal gene expression modalities for trajectory inference and disease prediction☆10Sep 20, 2022Updated 3 years ago
- Supplementary information for "Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcript…☆11Jan 15, 2024Updated 2 years ago
- Workflow to reproduce results and figures for the second BeatAML manuscript☆15Jun 28, 2022Updated 3 years ago
- ☆10Oct 12, 2023Updated 2 years ago
- SPATA Package for spatial gene expression analysis☆21May 6, 2022Updated 3 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.
- ☆13Jan 24, 2024Updated 2 years ago
- ☆21Aug 20, 2024Updated last year
- Estimation of Single-Cell Potency with Single Cell Entropy☆45Apr 12, 2023Updated 2 years ago
- LaTeX template of graduate Thesis [University of Chinese Academy of Sciences]☆12Nov 7, 2017Updated 8 years ago
- ☆34Apr 15, 2025Updated 11 months ago
- ☆21Jun 17, 2024Updated last year
- ☆41Jan 12, 2026Updated 2 months ago
- A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression☆229May 29, 2025Updated 9 months ago
- Single-cell epigenomics analysis tools☆311Mar 13, 2026Updated 2 weeks ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆26Oct 17, 2024Updated last year
- GIANT (Gene-based data Integration and ANalysis Technique) is a method for large-scale joint analyses of atlas-level single cell data.☆14Jun 13, 2023Updated 2 years ago
- represent each cell in UMAP plots as a pie chart☆16Sep 27, 2021Updated 4 years ago
- The benchmarking of spatial transcriptomics deconvolution methods☆34Feb 24, 2023Updated 3 years ago
- Spatiotemporal single-cell RNA sequencing of developing hearts reveals interplay between cellular differentiation and morphogenesis☆13Oct 31, 2023Updated 2 years ago
- code for 'Cell Types of Origin of the Cell Free Transcriptome' by Vorperian et al☆17Feb 22, 2022Updated 4 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…☆1,559Dec 11, 2022Updated 3 years ago