Workflow for single-cell RNA-seq analysis using Seurat
☆52Jan 14, 2024Updated 2 years ago
Alternatives and similar repositories for scrnaseq
Users that are interested in scrnaseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Brendan's skeleton scRNAseq workflow using scran, Seurat, and scClustViz☆11Apr 22, 2020Updated 6 years ago
- ☆17Jul 12, 2024Updated last year
- scRNASequest: an ecosystem of scRNA-seq analysis, visualization and publishing. BMC Genomics 24, 228 (2023).☆28Feb 4, 2026Updated 4 months ago
- A pipeline for scRNA analysis under HPC☆11Jul 15, 2024Updated last year
- Interactively analyze single cell genomic data☆188Jan 14, 2026Updated 5 months 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.
- The following repository contains code for all scRNAseq analysis and visualization performed in the paper: Single cell resolution analysi…☆18Oct 22, 2021Updated 4 years ago
- Functional code templates for the Star Protocols paper describing consolidated WES variant calling with 3 callers☆10Oct 18, 2024Updated last year
- Nextflow pipeline that runs DESeq2 on data processed with the nextflow RNAseq pipeline☆13Dec 2, 2025Updated 6 months ago
- Scripts to install as a Bioconda package for making workflows☆18Sep 15, 2024Updated last year
- Correlation-Based Feature Selection for Single-Cell RNA Sequencing Data☆22Jul 19, 2022Updated 3 years ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆17Sep 26, 2021Updated 4 years ago
- Pan-Cancer Single Cell Classifier☆87May 30, 2024Updated 2 years ago
- Projecting RNA measurements onto single cell atlases to extract cell type-specific expression profiles using scProjection☆16Aug 28, 2023Updated 2 years ago
- Toy files and training material to introduce Linux to molecular biologists☆22Jul 21, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)☆36Jan 8, 2025Updated last year
- CosMx Spatial Molecular Imager-derived cell profiles to aid in cell typing of SMI data.☆37Jan 24, 2025Updated last year
- A single-cell RNA-seq pipeline☆28Apr 12, 2023Updated 3 years ago
- R package for Bioconductor submission☆41Dec 8, 2022Updated 3 years ago
- Docker container for genomics analyses in R.☆28Apr 29, 2024Updated 2 years ago
- ☆42Oct 12, 2018Updated 7 years ago
- Search for a set of compatible indexes for your sequencing experiment☆11Sep 6, 2019Updated 6 years ago
- Demultiplexing pooled scRNA-seq data with or without genotype reference☆103Apr 11, 2025Updated last year
- ☆660Mar 13, 2026Updated 3 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.
- Reanalyze of GSE111527 scRNA-seq data☆20May 30, 2020Updated 6 years ago
- Robust Integration of Single-Cell Cytometry Datasets☆35Apr 29, 2026Updated last month
- R tools for analysis and visualization of single-cell subclustering data☆19May 1, 2026Updated last month
- Cluster Identity Predictor (R package implementation)☆21Mar 8, 2022Updated 4 years ago
- Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).☆88Dec 4, 2025Updated 6 months ago
- Rapid and robust analysis of RNA-Seq experiments.☆32Apr 16, 2016Updated 10 years ago
- Quality assessing, analyzing and testing the statistical significance of real-time quantitative PCR data☆31Sep 4, 2025Updated 9 months ago
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆258May 14, 2026Updated last month
- A list of scRNA-seq analysis tools☆799May 17, 2026Updated last month
- 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 analysis in the browser☆157Mar 26, 2026Updated 2 months ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆102Apr 16, 2026Updated 2 months ago
- Please consider using/contributing to https://github.com/nf-core/sarek☆18Jan 3, 2019Updated 7 years ago
- ☆10Jun 25, 2021Updated 4 years ago
- A Shiny web app for mapping datasets using Seurat v4☆146May 22, 2026Updated 3 weeks ago
- Introduction to bulk RNA-seq☆144Mar 16, 2026Updated 3 months ago
- Flexible, probablistic metrics for quality control of scRNA-seq data☆22May 27, 2026Updated 3 weeks ago