Differential expression analysis for single-cell RNA-seq data.
☆206Oct 21, 2025Updated 9 months ago
Alternatives and similar repositories for diffxpy
Users that are interested in diffxpy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fit generalized linear models in python.☆28Mar 6, 2023Updated 3 years ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆152Dec 5, 2024Updated last year
- CellRank: dynamics from multi-view single-cell data☆454Updated this week
- Reference mapping for single-cell genomics☆407Jun 26, 2026Updated last month
- RNA Velocity generalized through dynamical modeling☆506Feb 25, 2026Updated 5 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆631Jun 26, 2025Updated last year
- Single-cell analysis in Python. Scales to >100M cells.☆2,538Updated this week
- Deep probabilistic analysis of single-cell and spatial omics data☆1,675Updated this week
- A Bayesian model for compositional single-cell data analysis☆199Jan 13, 2026Updated 6 months ago
- Python package to perform normalization and variance-stabilization of single-cell data☆28Jul 17, 2025Updated last year
- Batch balanced KNN☆180Oct 11, 2023Updated 2 years ago
- Benchmarking analysis of data integration tools☆426Apr 27, 2026Updated 3 months ago
- muon is a multimodal omics Python framework☆278Updated this week
- Gene Set Enrichment Analysis in Python☆708Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Annotated data.☆764Updated this week
- Panoramic stitching of single cell data☆295Jul 14, 2025Updated last year
- data and model repository for single-cell data☆136Dec 21, 2023Updated 2 years ago
- A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.☆760Updated this week
- Memory-efficient single-cell analysis in Python. Stream RNA, ATAC, CITE-seq and multi-omics from local or remote Zarr stores, from laptop…☆121Updated this week
- Conversion between scRNA-seq objects☆210May 5, 2026Updated 3 months ago
- Comparison of dimensionality reduction methods☆30Mar 24, 2020Updated 6 years ago
- Convert between AnnData and SingleCellExperiment☆152Updated this week
- Python package to perform enrichment analysis from omics data.☆288Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆410Jun 16, 2026Updated last month
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆70Jul 9, 2026Updated last month
- A scanpy extension to analyse single-cell TCR and BCR data.☆264Updated this week
- 🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.☆281Apr 26, 2026Updated 3 months ago
- An interactive explorer for single-cell transcriptomics data☆784Updated this week
- ☆57May 22, 2018Updated 8 years ago
- RNA velocity estimation in Python☆175Oct 7, 2025Updated 10 months ago
- A package to help convert different single-cell data formats to each other☆470Feb 20, 2026Updated 5 months ago
- Single cell perturbation prediction☆352Dec 5, 2024Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).☆92Dec 4, 2025Updated 8 months ago
- Python library for plotting Cellphonedb results. Ported from ktplots R package.☆57Jun 29, 2026Updated last month
- Imputation method for scRNA-seq based on low-rank approximation☆81Dec 14, 2023Updated 2 years ago
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,584Dec 11, 2022Updated 3 years ago
- R package for the inference of cell fate bias from single-cell RNA-seq data.☆23Jun 14, 2022Updated 4 years ago
- software to detect doublets☆98Dec 28, 2024Updated last year
- Consistent Clusters for scRNA-seq☆11Oct 6, 2021Updated 4 years ago