Querying cellular states and programs by learning representations of gene sets
☆16Nov 2, 2025Updated 4 months ago
Alternatives and similar repositories for scDECAF
Users that are interested in scDECAF are comparing it to the libraries listed below
Sorting:
- Efficiently compute robust markers across single-cell datasets☆12Apr 21, 2021Updated 4 years ago
- ESICCC: A systematic computational framework for evaluation, selection and integration of cell-cell communication inference methods☆13Jan 10, 2024Updated 2 years ago
- Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq d…☆20Jul 7, 2022Updated 3 years ago
- Spatial transcriptomics analyses and decoding in R☆24Oct 23, 2025Updated 4 months ago
- Auto-annotations from Mouse brain development☆12Jul 11, 2020Updated 5 years ago
- Ordering gene-expression and functional events in single-cell experiments☆29Mar 7, 2026Updated 2 weeks ago
- ☆31Jun 10, 2025Updated 9 months ago
- ☆16Sep 13, 2024Updated last year
- Complex Heatmaps Using Base Graphics☆14Updated this week
- A collection of useful functions for bioinformatics data analysis☆25Feb 5, 2026Updated last month
- Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data☆18Apr 15, 2025Updated 11 months ago
- Detecting and dissecting anomalous anatomic regions in spatial transcriptomics with STANDS☆11Dec 27, 2024Updated last year
- Gene Set Scoring on the Nearest Neighbor Graph (gssnng) for Single Cell RNA-seq (scRNA-seq) using AnnData h5ad files.☆12Oct 1, 2024Updated last year
- R implementation of the Reshef and Rumker CNA method (https://github.com/immunogenomics/cna)☆15Aug 24, 2023Updated 2 years ago
- R package developed for single-cell RNA-seq analysis. It was designed using the Seurat framework, and offers existing and novel single-ce…☆33Nov 28, 2025Updated 3 months ago
- Gene group activity utility functions for Scanpy☆100Dec 21, 2024Updated last year
- Framework for analysis of cell-types and Ligand-Receptor cooccurrences☆18Feb 13, 2023Updated 3 years ago
- Supplementary information for "Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcript…☆11Jan 15, 2024Updated 2 years ago
- We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…☆14Oct 7, 2024Updated last year
- Code, data and analysis for moslin.☆15Oct 7, 2024Updated last year
- A single-cell analysis toolkit to jointly analyze samples from distinct conditions☆34Apr 2, 2025Updated 11 months ago
- Computational identification of targets for CAR-T cell therapy in AML☆21Dec 25, 2022Updated 3 years ago
- marker-based purification of cell types from single-cell RNA-seq datasets☆141Mar 13, 2026Updated last week
- Seismic R package. Discover cell type-trait associations in minutes for GWAS and single-cell RNA-sequencing data☆27Dec 10, 2025Updated 3 months ago
- Robust identification of perturbed cell types in single-cell RNA-seq data☆39Nov 10, 2025Updated 4 months ago
- ☆86Jun 29, 2024Updated last year
- ☆24Mar 3, 2026Updated 2 weeks ago
- Gene Expression Decomposition and Integration☆19Feb 9, 2026Updated last month
- ☆22Jan 21, 2026Updated last month
- Learning meaningful representations of genes☆21Jul 7, 2025Updated 8 months ago
- ☆17Sep 16, 2024Updated last year
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆191Jan 30, 2026Updated last month
- Variance stabilizing transformation for Gamma Poisson distributed data☆22Apr 11, 2023Updated 2 years ago
- Single-cell Mutual Information-based Network Engineering Ranger☆22Aug 28, 2025Updated 6 months ago
- A common data format and inference environment for single-cell trajectories 📦☆19Nov 26, 2025Updated 3 months ago
- Estimation of Single-Cell Potency with Single Cell Entropy☆45Apr 12, 2023Updated 2 years ago
- Framework for Unified Single-Cell Analysis (FUSCA) is a software package for single-cell data analysis developed in R. At the moment, it …☆22Feb 14, 2023Updated 3 years ago
- CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential mar…☆16Jan 1, 2026Updated 2 months ago
- Methods for label-free mass spectrometry proteomics☆15Mar 23, 2025Updated 11 months ago