edgePython is a Python implementation of the Bioconductor edgeR package for differential analysis of genomics count data. It also includes a new single-cell differential expression method that extends the NEBULA-LN negative binomial mixed model with edgeR's TMM normalization and empirical Bayes dispersion shrinkage.
☆42Mar 2, 2026Updated this week
Alternatives and similar repositories for edgePython
Users that are interested in edgePython are comparing it to the libraries listed below
Sorting:
- public production version of sequin to share with the public☆11Jan 6, 2025Updated last year
- Evaluation framework for computationally inferred gene networks from single-cell data.☆18Oct 23, 2025Updated 4 months ago
- Interactive & explainable GNN for drug repurposing☆14Mar 14, 2024Updated last year
- Modular & interactive analysis components for bioinformatics☆18Dec 9, 2025Updated 2 months ago
- Take command of your set enrichment analyses.☆23Updated this week
- ☆19Jan 24, 2025Updated last year
- Course website for Genomic Data Visualization 2022☆16Dec 28, 2022Updated 3 years ago
- Nascent Transcription Processing Pipeline☆22Nov 20, 2025Updated 3 months ago
- Container class to represent genomic locations and support genomic analysis☆26Feb 23, 2026Updated last week
- Docker Containers for Bioconductor☆89Updated this week
- Read RDS files, in Python☆26Feb 23, 2026Updated last week
- RNA-Seq Mutation Detection☆28Aug 6, 2021Updated 4 years ago
- a minimal, scriptable genome browser for python☆53Dec 20, 2024Updated last year
- Extension of SpatialExperiment with sf☆57Feb 19, 2026Updated last week
- Nextflow pipeline to re-process all public single-cell RNA-seq data☆31Jul 9, 2025Updated 7 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆79Feb 25, 2026Updated last week
- R interface to genome annotation files and the UCSC genome browser☆36Dec 25, 2025Updated 2 months ago
- ☆13Updated this week
- A performant scientific image visualization system.☆36Feb 26, 2026Updated last week
- ☆36Feb 20, 2026Updated last week
- A python implementation of scran computeSumFactors: normalization by deconvolution for single-cell RNA-sequencing☆34Nov 4, 2023Updated 2 years ago
- Classifier of pathogenic non-coding variants in Mendelian diseases☆10Feb 6, 2020Updated 6 years ago
- Code for the analysis performed in the paper "Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromati…☆12Oct 16, 2025Updated 4 months ago
- ☆10Aug 29, 2023Updated 2 years ago
- This is the ensembldb development repository.☆36Aug 18, 2025Updated 6 months ago
- ☆10Aug 28, 2025Updated 6 months ago
- general repo that holds all analysis and figures for the thymus spatial atlas by Yayon, Kedlian, Boehme, Radtke and many more!☆12Nov 20, 2024Updated last year
- ☆27Feb 4, 2026Updated last month
- Examples for gget (https://github.com/pachterlab/gget).☆39Feb 20, 2026Updated last week
- JIRA OSLC plugin is a JIRA add-on. Main role of this plugin is extend JIRA functionalities to provide establishing and removing OSLC link…☆10Aug 29, 2017Updated 8 years ago
- ☆12Jan 31, 2023Updated 3 years ago
- Store collections of experimental data based on TileDB☆12Feb 23, 2026Updated last week
- Transcriptional regulatory network inference from gene expression and prior information with LASSO-StARS☆15May 3, 2022Updated 3 years ago
- An open, collaborative project to analyze data from the Single-cell Pediatric Cancer Atlas (ScPCA) Portal☆14Feb 5, 2026Updated 3 weeks ago
- False discovery rate regression☆10Nov 12, 2020Updated 5 years ago
- Snakemake pipeline for the preprocessing, alignment, QC, and quantification of spatial transcriptomics data - both short-read and long-re…☆11Nov 16, 2025Updated 3 months ago
- ☆11Dec 17, 2025Updated 2 months ago
- Connectome File Format Library for Multi-Modal Neuroimaging Data and Metadata☆13Jan 14, 2019Updated 7 years ago
- Analysis code and results for dreamlet☆11Jul 18, 2025Updated 7 months ago