JSB-UCLA / scDEEDView external linksLinks
Single-cell dubious embedding detector (scDED): a statistical method for detecting dubious non-linear embeddings
☆48May 14, 2025Updated 9 months ago
Alternatives and similar repositories for scDEED
Users that are interested in scDEED are comparing it to the libraries listed below
Sorting:
- Aligning gene expression trajectories of single-cell reference and query systems☆81Aug 10, 2025Updated 6 months ago
- scVI extension for unspliced RNA☆16May 18, 2025Updated 8 months ago
- ☆52Mar 23, 2025Updated 10 months ago
- ☆33Jan 26, 2026Updated 2 weeks ago
- ☆63Sep 13, 2024Updated last year
- ☆11Nov 7, 2022Updated 3 years ago
- ☆33Jan 23, 2025Updated last year
- Robust identification of perturbed cell types in single-cell RNA-seq data☆38Nov 10, 2025Updated 3 months ago
- Non-parametric density inference for single-cell analysis.☆73May 22, 2025Updated 8 months ago
- Gene group activity utility functions for Scanpy☆100Dec 21, 2024Updated last year
- A computational method scSemiProfiler that provides affordable single-cell data for large-scale disease cohorts using deep generative mod…☆26Jun 7, 2025Updated 8 months ago
- Finding gene expression states in scRNA-seq data☆50Mar 22, 2024Updated last year
- Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets☆125Apr 16, 2025Updated 9 months ago
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆54Oct 31, 2024Updated last year
- ☆36Apr 16, 2025Updated 9 months ago
- ☆19Jul 17, 2024Updated last year
- A modular tool for proportion analysis in single-cell sequencing data☆24Sep 19, 2025Updated 4 months ago
- Single-cell Mutual Information-based Network Engineering Ranger☆22Aug 28, 2025Updated 5 months ago
- MarcoPolo is a clustering-free approach to the exploration of bimodally expressed genes along with group information in single-cell RNA-s…☆20Nov 17, 2024Updated last year
- Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R☆119Jan 20, 2026Updated 3 weeks ago
- Multi-modal single cell analysis pipelines☆62Dec 11, 2025Updated 2 months ago
- ABSOLUTE source code that works with allelic copy ratio on both hg19 and hg38☆13Nov 5, 2025Updated 3 months ago
- RAPToR (Real Age Prediction from Transcriptome staging on Reference) is a tool to accurately predict individual samples' developmental ag…☆23Mar 29, 2023Updated 2 years ago
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆189Jan 30, 2026Updated 2 weeks ago
- Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data☆22Mar 25, 2024Updated last year
- Out-of-Core Principal Component Analysis☆19Dec 25, 2017Updated 8 years ago
- This repository contains all DeepCLIP Python code☆11May 30, 2024Updated last year
- SkewC a novel quality-assessment method to identify poor quality single-cells in scRNA-seq experiments. The method relies on the measure …☆10Aug 2, 2023Updated 2 years ago
- TQSLE v1.0 released☆10Aug 29, 2023Updated 2 years ago
- Porting of Protein Activity and Pathway Inference to single cell and Python.☆12Feb 1, 2026Updated 2 weeks ago
- ☆15May 19, 2025Updated 8 months ago
- monae: multi-modal single-cell integration and imputation☆13Sep 13, 2024Updated last year
- A comprehensive analysis tool for Ribo-seq and small RNA-seq data☆10Jun 22, 2020Updated 5 years ago
- scMalignantFinder is a Python package specially designed for analyzing cancer single-cell RNA-seq datasets to distinguish malignant cells…☆17Dec 13, 2025Updated 2 months ago
- IsoVis enables fast and informative visualization of isoform structures and expression levels.☆13Feb 5, 2026Updated last week
- ☆12Mar 5, 2024Updated last year
- ☆12Oct 31, 2020Updated 5 years ago
- CHOIR : Clustering Hierarchy Optimization by Iterative Random forests (www.CHOIRclustering.com)☆87Apr 16, 2025Updated 9 months ago
- Integrate Analysis and Visualization for Bioinformatic Enrichment Analyzer☆82Dec 16, 2023Updated 2 years ago