Papers with code for single cell related papers
☆306Mar 23, 2026Updated 2 weeks ago
Alternatives and similar repositories for single-cell-papers-with-code
Users that are interested in single-cell-papers-with-code are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.☆631Mar 11, 2026Updated last month
- Machine learning-based integrative analysis develops an immune-derived lncRNA signature for improving clinical outcomes in colorectal can…☆129May 30, 2025Updated 10 months ago
- Useful functions to make your scRNA-seq plot more cool!☆384Mar 23, 2026Updated 2 weeks ago
- ☆22Mar 6, 2023Updated 3 years ago
- A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.☆940Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Accurate and fast cell marker gene identification with COSG☆64Feb 8, 2026Updated 2 months ago
- 🐯 tigeR: Tumor Immunotherapy Gene Expression Data Analysis R package☆54Jan 21, 2026Updated 2 months ago
- Scissor package☆257May 10, 2024Updated last year
- Single-cell multi-omics analysis reveals regulatory programs in clear cell renal cell carcinoma☆81Oct 29, 2024Updated last year
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆233Mar 17, 2026Updated 3 weeks ago
- A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gen…☆67Oct 16, 2025Updated 5 months ago
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,695Updated this week
- https://www.sc-best-practices.org☆1,181Updated this week
- Quantifying metabolism activity at the single-cell resolution☆167Feb 18, 2026Updated last month
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,560Dec 11, 2022Updated 3 years ago
- Methods to discover gene programs on single-cell data☆179Apr 1, 2026Updated last week
- ☆124Sep 4, 2025Updated 7 months ago
- ☆656Mar 13, 2026Updated 3 weeks ago
- Use batch balanced KNN (BBKNN) in R☆13Sep 9, 2025Updated 7 months ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆133Sep 6, 2024Updated last year
- IOBR is an R package to perform comprehensive analysis of tumor microenvironment and signatures for immuno-oncology. https://iobr.github.…☆284Updated this week
- Multi-Omics integration and VIsualization in Cancer Subtyping☆146Jul 19, 2021Updated 4 years ago
- Generate high quality, publication ready visualizations for single cell transcriptomics data.☆220Mar 2, 2026Updated last month
- 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.
- Single-cell Lung Cancer Atlas with 1.2M cells☆91Jan 19, 2025Updated last year
- These are scripts for pan-cacner NK cells analyses.☆77Aug 18, 2023Updated 2 years ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆98Feb 23, 2026Updated last month
- A R package for advanced single cell data viz☆74Aug 29, 2025Updated 7 months ago
- This is the repository that contains the analysis of the lung adenocarcinoma single cell dataset☆154Jan 6, 2021Updated 5 years ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆295Updated this week
- An R package to calculate Dynamical Network Biomarkers (DNB).☆10Sep 16, 2022Updated 3 years ago
- ☆45May 3, 2021Updated 4 years ago
- High dimensional weighted gene co-expression network analysis☆469Mar 13, 2026Updated 3 weeks ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- This repository contains the code used to generate figures and perform analysis for the manuscript titled "Transcriptomic and Spatial Pro…☆90Oct 9, 2024Updated last year
- A package to help convert different single-cell data formats to each other☆462Feb 20, 2026Updated last month
- The integration of single cell rank-based gene set enrichment analysis☆148Jan 14, 2026Updated 2 months ago
- Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper☆57Jan 6, 2025Updated last year
- Draw phylogenetic trees of tumor evolution☆87Jul 21, 2023Updated 2 years ago
- 生信爱好者周刊（每周日发布）☆462Dec 29, 2025Updated 3 months ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆470Jun 6, 2025Updated 10 months ago