scverse / pertpy
Perturbation Analysis in the scverse ecosystem.
☆141Updated 3 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for pertpy
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆93Updated this week
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆109Updated 2 months ago
- LIANA+: an all-in-one framework for cell-cell communication☆167Updated 2 months ago
- Python package to perform enrichment analysis from omics data.☆166Updated 2 months ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆141Updated last week
- Models and datasets for perturbational single-cell omics☆143Updated 2 years ago
- Multi-omic single-cell optimal transport tools☆116Updated this week
- Accelerated, Python-only, single-cell integration benchmarking metrics☆49Updated this week
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆137Updated this week
- CZ CELLxGENE Discover Census☆86Updated this week
- Multi-omic velocity inference☆107Updated 3 weeks ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆105Updated 9 months ago
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆158Updated 3 months ago
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆121Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆147Updated 4 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆115Updated 6 months ago
- ☆98Updated 6 months ago
- Formalizing and benchmarking open problems in single-cell genomics☆56Updated 2 months ago
- Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology☆105Updated 3 months ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆201Updated 5 months ago
- Batch balanced KNN☆149Updated last year
- Benchmarking analysis of data integration tools☆309Updated last month
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆186Updated 2 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆60Updated last year
- data and model repository for single-cell data☆135Updated 11 months ago
- A Bayesian model for compositional single-cell data analysis☆150Updated last year
- muon is a multimodal omics Python framework☆218Updated 3 weeks ago
- spatial transcriptome, single cell☆65Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆111Updated 2 months ago
- ☆68Updated 3 months ago