A guide for analyzing single-cell RNA-seq data using the R package Seurat. Go from raw data to cell clustering, identifying cell types, custom visualizations, and group-wise analysis of tumor infiltrating immune cells using data from Ishizuka et al. Nature 2019.
☆29Feb 19, 2020Updated 6 years ago
Alternatives and similar repositories for single-cell-rnaseq-analysis
Users that are interested in single-cell-rnaseq-analysis are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…☆120Aug 21, 2020Updated 5 years ago
- Single-Cell Analysis of Immune Cells from Renal Clear Cell Carcinoma☆21Aug 15, 2021Updated 4 years ago
- analysis script for GBM single cell RNA seq data☆22May 26, 2021Updated 4 years ago
- single-cell Nucleosome Methylation Transcription☆14Mar 5, 2018Updated 8 years ago
- A user-friendly R pipeline for biomarker discovery in single-cell transcriptomics☆14Jan 9, 2026Updated 3 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ☆11Jun 10, 2024Updated last year
- Code for the benchmarking single-cell foundation models (scGPT, scBERT, and Geneformer) for cell-type annotation task using skewed single…☆15Dec 8, 2024Updated last year
- Python framework for single-cell RNA-seq clustering with special focus on transfer learning.☆18Aug 29, 2019Updated 6 years ago
- R Package for Single-Cell Dataset Processing and Visualization☆66Jul 26, 2021Updated 4 years ago
- Trajectory inference and differential expression over multiple conditions in scRNA-seq☆26Apr 22, 2021Updated 4 years ago
- Analysis for 2019 submission "Integrated single cell analysis of blood and cerebrospinal fluid leukocytes in multiple sclerosis" Schaffli…☆22Jun 17, 2021Updated 4 years ago
- scRNA analysis of public dataset on bladder cancer☆19Dec 12, 2025Updated 4 months ago
- Code and Data Availability for Single cell transcriptomics reveals a signaling roadmap coordinating endoderm and mesoderm lineage diversi…☆10Apr 16, 2020Updated 6 years ago
- SingleCell: A Python/Cython Package for Processing Single-Cell RNA-Seq Data.☆11Jan 26, 2018Updated 8 years ago
- 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.
- ☆45May 3, 2021Updated 4 years ago
- sharing interactive single cell gene expression visualizations from Seurat☆12May 18, 2023Updated 2 years ago
- CiteFuse:☆28Feb 7, 2023Updated 3 years ago
- Data-driven signal detection for unbiased scRNA-seq data analysis☆23Jan 22, 2026Updated 2 months ago
- Template for building your own portfolio☆27Jul 2, 2025Updated 9 months ago
- ☆18Oct 4, 2022Updated 3 years ago
- Brings SingleCellExperiment objects to the tidyverse☆37Nov 10, 2025Updated 5 months ago
- ☆19Sep 29, 2021Updated 4 years ago
- Targeted and non-targeted anticancer drugs and drug regimens☆30Mar 23, 2026Updated 3 weeks ago
- 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.
- Hierarchically Regularized Entropy Balancing☆12Sep 20, 2025Updated 6 months ago
- Source files for the SmartRoot software. Website: https://smartroot.github.io/☆16Jun 28, 2022Updated 3 years ago
- Interactive single cell RNA-seq analysis webserver!☆10Mar 15, 2023Updated 3 years ago
- Multi-omics profiling of peripheral immune system response to SARS-CoV-2 infection☆41Dec 21, 2021Updated 4 years ago
- ☆21Mar 4, 2024Updated 2 years ago
- SIB/Scilifelab autumn school in single cell omics 2019.☆22Oct 28, 2019Updated 6 years ago
- Robust single cell clustering and comparison of population compositions across tissues and experimental models via similarity analysis.☆15Jul 16, 2023Updated 2 years ago
- Benchmarking computational doublet-detection methods for single-cell RNA sequencing data☆10Feb 25, 2021Updated 5 years ago
- SAFE (Single-cell Aggregated clustering From Ensemble): Cluster ensemble for single-cell RNA-seq data☆19Mar 27, 2021Updated 5 years ago
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- ☆25Oct 25, 2023Updated 2 years ago
- Comparison of single cell normalization strategies☆11Aug 13, 2021Updated 4 years ago
- repository for the single cell RNA-Seq workshop☆31Apr 20, 2021Updated 4 years ago
- Scripts used for the Differential NicheNet analyses in the Liver Atlas paper Guilliams et al., Cell 2022☆10Jan 12, 2022Updated 4 years ago
- Simple App to visualize single cell datasets☆21Apr 12, 2018Updated 8 years ago
- R package for robust clustering of single cell RNA sequencing data☆40Jul 10, 2023Updated 2 years ago
- Quarto template for manuscripts & preprints☆13May 16, 2023Updated 2 years ago