rargelaguet / mouse_organogenesis_10x_multiome_publicationLinks
Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
☆40Updated 3 years ago
Alternatives and similar repositories for mouse_organogenesis_10x_multiome_publication
Users that are interested in mouse_organogenesis_10x_multiome_publication are comparing it to the libraries listed below
Sorting:
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆62Updated last year
- Functional Inference of Gene Regulation☆51Updated last year
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆32Updated last year
- All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs☆41Updated 2 years ago
- ☆62Updated last month
- Aligning gene expression trajectories of single-cell reference and query systems☆80Updated 5 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Updated last year
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆81Updated 11 months ago
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated 4 months ago
- Single cell omics biology annotations☆53Updated 9 months ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆67Updated 6 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆69Updated 3 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆126Updated 2 months ago
- Multi-resolution Variational Inference☆22Updated 2 weeks ago
- Parse ArchR arrow files to anndata h5ad☆16Updated 2 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆56Updated 8 months ago
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆46Updated 5 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆79Updated this week
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆58Updated this week
- ☆26Updated 2 years ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆97Updated 8 months ago
- Analysis of cell-cell communication at single-cell resolution☆106Updated last year
- ☆22Updated 3 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆84Updated 10 months ago
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆26Updated last year
- NATMI: Network Analysis Toolkit for the Multicellular Interactions☆35Updated 4 years ago
- ☆27Updated 4 years ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆44Updated 3 years ago
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆32Updated this week