A single-cell analysis toolkit to jointly analyze samples from distinct conditions
☆35Apr 2, 2025Updated last year
Alternatives and similar repositories for decipher
Users that are interested in decipher are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆16Sep 1, 2023Updated 2 years ago
- ☆13Nov 3, 2023Updated 2 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆87Aug 10, 2025Updated 8 months ago
- Code, data and analysis for moslin.☆15Oct 7, 2024Updated last year
- Pairwise Hierarchical Model☆20Mar 11, 2022Updated 4 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.
- Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)☆26Apr 22, 2026Updated last week
- Non-parametric density inference for single-cell analysis.☆73Apr 10, 2026Updated 3 weeks ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Jan 11, 2025Updated last year
- ☆13Aug 9, 2022Updated 3 years ago
- ☆32Apr 3, 2026Updated 3 weeks ago
- Gene Expression Decomposition and Integration☆19Feb 9, 2026Updated 2 months ago
- Code and example of the D-SPIN framework☆25Mar 12, 2026Updated last month
- single-cell decorrelated module networks☆31Aug 24, 2024Updated last year
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆31Mar 7, 2025Updated last year
- 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.
- ☆38Apr 16, 2025Updated last year
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆245Mar 14, 2026Updated last month
- Consensus peaks of chromatin accessibility in the human genome☆17Dec 1, 2025Updated 5 months ago
- Bayesian model for RNA velocity estimation of periodic manifolds☆35Jun 25, 2024Updated last year
- ☆65Sep 13, 2024Updated last year
- Querying cellular states and programs by learning representations of gene sets☆16Nov 2, 2025Updated 5 months ago
- R package for gene selection using k-NN graphs.☆13Jun 12, 2023Updated 2 years ago
- cell type specific, trait-associated gene regulation☆29Mar 31, 2025Updated last year
- ☆35Mar 16, 2026Updated last month
- 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.
- Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA☆86Apr 21, 2025Updated last year
- Single-cell perturbation analysis☆309Updated this week
- scVI extension for unspliced RNA☆15May 18, 2025Updated 11 months ago
- Single cell omics biology annotations☆56Feb 26, 2026Updated 2 months ago
- Network analyses of single cell-based digital twins for personalized treatment of inflammatory disease☆15Mar 23, 2024Updated 2 years ago
- Scripts from the GBM cellular states paper☆21Feb 24, 2021Updated 5 years ago
- ☆10Apr 28, 2023Updated 3 years ago
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆194Jan 30, 2026Updated 3 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆86Mar 20, 2025Updated last year
- 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.
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆39Dec 17, 2025Updated 4 months ago
- scPRAM accurately predicts single-cell gene expression perturbation response based on attention mechanism☆18Oct 17, 2024Updated last year
- python API to the CoGAPS NMF package☆21May 19, 2025Updated 11 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆128Apr 14, 2026Updated 2 weeks ago
- scTriangulate is a Python package to mix-and-match conflicting clustering results in single cell analysis and generate reconciled cluster…☆38Mar 30, 2026Updated last month
- ☆62Apr 5, 2024Updated 2 years ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Nov 15, 2024Updated last year