Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)
☆34Oct 6, 2022Updated 3 years ago
Alternatives and similar repositories for iDEA
Users that are interested in iDEA are comparing it to the libraries listed below
Sorting:
- R package: determining cutoff values from bimodal data☆11Mar 17, 2024Updated last year
- Single-cell analytic toolbox that offers modular workflows for multi-level cellular annotation and user-friendly analysis reports☆11May 25, 2023Updated 2 years ago
- A method which leverages scRNA-seq data to achieve two goals: (1) to infer the cell types in which the disease-associated genes manifest …☆26Sep 20, 2022Updated 3 years ago
- A single-cell RNAseq differential expression analysis approach in case-control study☆10Mar 6, 2022Updated 4 years ago
- ☆10Mar 11, 2025Updated 11 months ago
- Multi-Enrichment Analysis of Gene Set Enrichment Analysis Results☆26Feb 25, 2026Updated last week
- R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)☆12Aug 17, 2023Updated 2 years ago
- Kinship In Mixed Model Analysis of RNA-seq☆15Apr 14, 2025Updated 10 months ago
- Identification of clone-specific and cancer-selective multi-targeting therapeutic options based on single-cell transcriptomic profiles of…☆19Feb 20, 2025Updated last year
- ☆12Sep 24, 2020Updated 5 years ago
- R package for single-cell RNA-sequencing analysis☆15Sep 30, 2025Updated 5 months ago
- Linear trajectory inference for single-cell RNA-seq☆61Nov 26, 2025Updated 3 months ago
- The EnrichmentMap Cytoscape App allows you to visualize the results of gene-set enrichment as a network.☆35Oct 7, 2024Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆620Nov 12, 2025Updated 3 months ago
- ☆63Aug 26, 2025Updated 6 months ago
- ☆20Nov 15, 2020Updated 5 years ago
- iCellR is an interactive R package designed to facilitate the analysis and visualization of high-throughput single-cell sequencing data. …☆128Nov 10, 2025Updated 3 months ago
- Clone of the Bioconductor repository for the SingleR package.☆199Feb 27, 2026Updated last week
- ☆23Jul 9, 2025Updated 8 months ago
- Cluster Identity Predictor (R package implementation)☆21Mar 8, 2022Updated 4 years ago
- Multiscale embedded gene co-expression network analysis☆58Jan 9, 2024Updated 2 years ago
- A container (S4 class) for matrix-like assays☆36Feb 5, 2026Updated last month
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆44Sep 20, 2024Updated last year
- Predicted cell-cell interactions of the aging mouse brain☆20Sep 24, 2019Updated 6 years ago
- Spatially aware dimension reduction for spatial transcriptomics.☆64Mar 18, 2025Updated 11 months ago
- ☆13Jun 15, 2024Updated last year
- GOAT: efficient and robust identification of gene set enrichment☆14Jan 24, 2026Updated last month
- ☆13Feb 12, 2026Updated 3 weeks ago
- Functions for handling RNA-seq files and formats as input and output for scrattch functions.☆11Aug 20, 2025Updated 6 months ago
- Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data☆109Jul 3, 2023Updated 2 years ago
- Single-cell RNA-seq analysis from "Single cell transcriptomics reveals spatial and temporal dynamics of gene expression in the developing…☆26May 12, 2020Updated 5 years ago
- A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batch…☆38Nov 16, 2021Updated 4 years ago
- ☆24Aug 2, 2024Updated last year
- Foundation of integer range manipulation in Bioconductor☆23Oct 30, 2025Updated 4 months ago
- BingleSeq - A user-friendly R package for Bulk and Single-cell RNA-Seq data analyses☆22Jul 11, 2021Updated 4 years ago
- Single Cell Oriented Reconstruction of PANDA-based Individually Optimized Networks☆27Feb 25, 2026Updated last week
- ☆23Jun 5, 2021Updated 4 years ago
- Model-based Dimensionality Reduction for Single-cell RNA-seq with Generalized Bilinear Models☆13Jul 29, 2025Updated 7 months ago
- Calibrated clustering via knockoffs for single-cell genomics☆10Feb 13, 2025Updated last year