List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
☆14Sep 3, 2016Updated 9 years ago
Alternatives and similar repositories for awesome-single-cell
Users that are interested in awesome-single-cell are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Allen Brain Atlas utilities, parsers and data structures☆11Jun 25, 2017Updated 9 years ago
- Analysis pipeline for the adolescent mouse nervous system project☆25Jun 5, 2026Updated 2 months ago
- ☆28Feb 6, 2019Updated 7 years ago
- ☆10Nov 5, 2023Updated 2 years ago
- Clone of the Bioconductor repository for the MouseGastrulationData package.☆13Jan 24, 2024Updated 2 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Tool for sharing, browsing and visualizing single-cell data stored in the Loom file format☆38Jan 10, 2025Updated last year
- a GFA toolkit☆13Oct 4, 2024Updated last year
- sake☆29Feb 8, 2023Updated 3 years ago
- 'minis' is a software for electrophysiological data analysis. It allows you to detect and analyse spontaneous postsynaptic potetnials/cur…☆12Jul 8, 2026Updated last month
- time course regulatory analysis from paired gene expression and chromatin accessibility time course data☆11Nov 10, 2023Updated 2 years ago
- 📝 [Tutorial] RepSeq data mining basics in R☆11Mar 13, 2019Updated 7 years ago
- Analysis code for the TAP-seq manuscript.☆11Jun 25, 2021Updated 5 years ago
- Tumor-Infiltrating CD8 Lymphocytes states prediction☆14Feb 7, 2024Updated 2 years ago
- Algorithms for single-cell analysis☆29Jul 19, 2021Updated 5 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆12Sep 4, 2025Updated 11 months ago
- VEGA: VAE Enhanced by Gene Annotations☆18May 5, 2022Updated 4 years ago
- RNA seq analysis using Bioconductor (analysis built on limma, edgeR)☆12Sep 23, 2022Updated 3 years ago
- Heterogeneity Induced Pre-Processing tOol☆19Aug 15, 2021Updated 4 years ago
- User-friendly Bioinformatics Tools☆18Mar 5, 2021Updated 5 years ago
- scRNA seq analysis using Seurat V3☆13Jun 23, 2021Updated 5 years ago
- Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"☆55Feb 15, 2021Updated 5 years ago
- Keras network for spike detection from calcium traces☆12Jul 7, 2020Updated 6 years ago
- The Tomographer package implements the mathematical spatial image reconstruction of any set of read counts as described in the following …☆11May 15, 2021Updated 5 years 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.
- SamuROI - Structured analysis of multiple user-defined ROIs, an open source Python-based analysis environment for imaging data.☆17Apr 9, 2019Updated 7 years ago
- express course in ML to fell in love with☆11Dec 26, 2019Updated 6 years ago
- Circadian rhythm analysis and visualisation in R☆14Apr 21, 2025Updated last year
- A Bioconductor R package for detecting cell-to-cell variably methylated regions (VMRs) from single-cell bisulfite sequencing leveraging p…☆11Jul 13, 2025Updated last year
- ☆12May 15, 2024Updated 2 years ago
- Data and analysis scripts for our Embryo Timecourse paper.☆68Dec 16, 2019Updated 6 years ago
- ☆22Jul 4, 2017Updated 9 years ago
- single nuclei RNA-seq analysis toolbox☆10Oct 26, 2016Updated 9 years ago
- Weighted gene co-expression network analysis for scRNA-seq data in Seurat☆10Dec 15, 2023Updated 2 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Trans-association between HLA and TCR-CDR3☆19Mar 29, 2023Updated 3 years ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆121Mar 10, 2026Updated 5 months ago
- ☆10Feb 12, 2019Updated 7 years ago
- Toolkit for QTL mapping and meta-analysis.☆17May 24, 2022Updated 4 years ago
- Strategies to Gekko trading bot with backtests results and some useful tools.☆11May 5, 2018Updated 8 years ago
- Predict cell cycle phase in a continuum from single-cell RNA-seq data☆14Nov 14, 2020Updated 5 years ago
- Summary statistics for repertoires☆17Feb 1, 2023Updated 3 years ago