theislab / scib-reproducibilityLinks
Additional code and analysis from the single-cell integration benchmarking project
☆71Updated 3 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…☆116Updated last year
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆112Updated 3 months ago
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆147Updated 2 years ago
- Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics☆58Updated 7 months ago
- ☆122Updated 7 months ago
- A benchmark of batch-effect correction methods for single-cell RNA sequencing data☆79Updated 3 years ago
- Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data☆74Updated last year
- End-to-end analysis of spatial multi-omics data☆102Updated 2 months ago
- Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space☆80Updated this week
- Predict RNA velocity through deep learning☆71Updated 2 years ago
- Accelerated, Python-only, single-cell integration benchmarking metrics☆81Updated this week
- ☆62Updated 2 years ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆58Updated 2 years ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆80Updated 11 months ago
- Multi-omic velocity inference☆113Updated last year
- Spatial transcriptomics of heart tissue☆106Updated 2 years ago
- Python implementation of Milo for differential abundance testing on KNN graph☆80Updated 11 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆116Updated last year
- Single cell omics biology annotations☆51Updated 8 months ago
- Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets☆32Updated 2 years ago
- Deep learning model for single-cell inference of multi-omic profiles from a single input modality.☆46Updated 2 years ago
- ☆45Updated 2 years ago
- ☆131Updated 2 years ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆100Updated 4 months ago
- ☆47Updated last year
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆137Updated 10 months ago
- ☆47Updated 5 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆126Updated last month
- Gene group activity utility functions for Scanpy☆99Updated last year
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆48Updated 4 years ago