openproblems-bio / openproblems-v2Links
Formalizing and benchmarking open problems in single-cell genomics
☆57Updated 4 months ago
Alternatives and similar repositories for openproblems-v2
Users that are interested in openproblems-v2 are comparing it to the libraries listed below
Sorting:
- Unsupervised Deep Disentangled Representation of Single-Cell Omics☆55Updated last week
- Accelerated, Python-only, single-cell integration benchmarking metrics☆76Updated this week
- Multi-omic velocity inference☆111Updated last year
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆107Updated last month
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆178Updated last year
- Additional code and analysis from the single-cell integration benchmarking project☆67Updated 2 years ago
- CZ CELLxGENE Discover Census☆112Updated this week
- Python implementation of the Slingshot pseudotime algorithm☆66Updated last week
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆50Updated 9 months ago
- Single cell omics biology annotations☆50Updated 6 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 8 months ago
- ☆56Updated 3 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆50Updated this week
- End-to-end analysis of spatial multi-omics data☆95Updated 3 months ago
- ☆85Updated last year
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆142Updated 2 years ago
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆152Updated 8 months ago
- ☆56Updated 5 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆168Updated 7 months ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆115Updated last year
- spatial transcriptome, single cell☆71Updated 2 years ago
- Single-cell perturbation analysis☆210Updated last week
- Models and datasets for perturbational single-cell omics☆167Updated 3 years ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆61Updated 2 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated last month
- ☆56Updated last year
- Metacells - Single-cell RNA Sequencing Analysis☆114Updated last year
- ☆35Updated last week
- single cell foundation model for Gene network inference and more☆17Updated 4 months ago
- Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases☆35Updated last month