theislab / scib-reproducibilityLinks
Additional code and analysis from the single-cell integration benchmarking project
☆67Updated 2 years ago
Alternatives and similar repositories for scib-reproducibility
Users that are interested in scib-reproducibility are comparing it to the libraries listed below
Sorting:
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆113Updated last year
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆103Updated this week
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆141Updated 2 years ago
- ☆114Updated 4 months ago
- Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data☆72Updated 8 months ago
- Predict RNA velocity through deep learning☆70Updated last year
- End-to-end analysis of spatial multi-omics data☆93Updated last month
- Spatial transcriptomics of heart tissue☆95Updated last year
- Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics☆54Updated 3 months ago
- ☆46Updated last year
- Gene group activity utility functions for Scanpy☆90Updated 9 months ago
- Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space☆79Updated 3 weeks ago
- Multi-omic velocity inference☆111Updated 11 months ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆55Updated 2 years ago
- Metacells - Single-cell RNA Sequencing Analysis☆111Updated last year
- Accelerated, Python-only, single-cell integration benchmarking metrics☆72Updated this week
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- ☆45Updated 2 months ago
- Single cell omics biology annotations☆51Updated 5 months ago
- A benchmark of batch-effect correction methods for single-cell RNA sequencing data☆79Updated 3 years ago
- ☆60Updated 2 years ago
- Python implementation of the Slingshot pseudotime algorithm☆64Updated last year
- Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets☆33Updated 2 years ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆132Updated 7 months ago
- ☆54Updated 11 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆77Updated 8 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆46Updated 4 years ago
- R implementation of GeneTrajectory☆65Updated last year
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 2 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆65Updated last month