mossjacob / pyslingshotLinks
Python implementation of the Slingshot pseudotime algorithm
☆64Updated last year
Alternatives and similar repositories for pyslingshot
Users that are interested in pyslingshot are comparing it to the libraries listed below
Sorting:
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 6 months ago
- Multi-omic velocity inference☆110Updated 10 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆64Updated last week
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 2 months ago
- Single cell omics biology annotations☆51Updated 4 months ago
- ☆40Updated this week
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆74Updated last month
- Non-parametric density inference for single-cell analysis.☆72Updated 3 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆111Updated 11 months ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆55Updated last week
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated last week
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- Predict RNA velocity through deep learning☆70Updated last year
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated last year
- R implementation of GeneTrajectory☆63Updated last year
- ☆46Updated last year
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆113Updated last year
- ☆80Updated this week
- Cell cycle inference in single-cell RNA-seq☆50Updated 2 years ago
- ☆54Updated 10 months ago
- ☆45Updated last year
- Gene group activity utility functions for Scanpy☆87Updated 8 months ago
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆49Updated 7 months ago
- Accelerated, Python-only, single-cell integration benchmarking metrics☆72Updated this week
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆22Updated last week
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆45Updated 4 years ago
- ☆45Updated last month
- inferring regulatory cellular dynamics☆56Updated this week
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆79Updated 5 months ago
- ☆114Updated 3 months ago