A novel method for single-cell diagonal integration: scConfluence
☆26Nov 3, 2025Updated 4 months ago
Alternatives and similar repositories for scconfluence
Users that are interested in scconfluence are comparing it to the libraries listed below
Sorting:
- Learning cell fate landscapes from spatial transcriptomics using Fused Gromov-Wasserstein☆25Oct 21, 2025Updated 4 months ago
- Molecular interactions inference from single-cell multi-omics data☆30Jan 14, 2026Updated last month
- single cell foundation model for Gene network inference and more☆19Nov 24, 2025Updated 3 months ago
- Single Cell Pretrained Regulatory network INference from Transcripts☆11Sep 17, 2024Updated last year
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆33Feb 1, 2026Updated last month
- Scatterbar - data visualization for proportional data across many spatially resolved coordinates☆11Mar 3, 2025Updated last year
- ☆14Jan 25, 2023Updated 3 years ago
- Python package for the ICML 2022 paper "Unsupervised Ground Metric Learning Using Wasserstein Singular Vectors".☆10Sep 2, 2024Updated last year
- ☆12Sep 29, 2023Updated 2 years ago
- Scalable framework for comparing metric measure spaces with up to 1M points.☆15Apr 6, 2021Updated 4 years ago
- SuperCell for Cytometry data☆13Oct 14, 2025Updated 4 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆95Dec 11, 2023Updated 2 years ago
- Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"☆14May 27, 2023Updated 2 years ago
- Probabilistic factor models for spatially correlated data. Includes nonnegative and real-valued versions.☆18Dec 5, 2024Updated last year
- ChIP-seq peak caller for reads mapped to a graph-based reference genome☆25Aug 17, 2024Updated last year
- ☆61Jul 23, 2024Updated last year
- python API to the CoGAPS NMF package☆19May 19, 2025Updated 9 months ago
- ☆15Aug 17, 2023Updated 2 years ago
- reComBat package to correct batch effects☆13Jul 17, 2023Updated 2 years ago
- SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.☆79Jun 24, 2024Updated last year
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆42Mar 2, 2025Updated last year
- ☆42Feb 11, 2026Updated 3 weeks ago
- Learning stochastic dynamics from snapshots through regularized unbalanced optimal transport (ICLR'25 oral)☆32Dec 10, 2025Updated 2 months ago
- Reworked clustering metrics for assessing performance in imbalanced settings☆18Jun 3, 2024Updated last year
- Toolbox of the Human Neural Organoid Cell Atlas☆30Feb 23, 2026Updated last week
- Single-cell multi-omics integration using Optimal Transport☆50Aug 14, 2025Updated 6 months ago
- This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in…☆43Feb 3, 2023Updated 3 years ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆41Feb 19, 2026Updated last week
- ☆26Apr 1, 2025Updated 11 months ago
- An optimal transport-based algorithm for inferring cell trajectories of spatial transcriptomics.☆36Mar 30, 2025Updated 11 months ago
- Nonnegative spatial factorization for multivariate count data☆65Jun 28, 2023Updated 2 years ago
- comseg☆24Feb 6, 2025Updated last year
- Probabilistic Alignment of Spatial Transcriptomics Experiments☆100Feb 26, 2025Updated last year
- Global Waddington-OT☆23Mar 25, 2025Updated 11 months ago
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 4 years ago
- A versatile single-cell cross-modality translation method via dual-aligned variational autoencoders☆28Jul 1, 2024Updated last year
- MERFISH decoding software☆26Aug 16, 2025Updated 6 months ago
- ☆26Dec 25, 2023Updated 2 years ago
- ☆31May 4, 2025Updated 10 months ago