mossjacob / pyslingshotLinks
Python implementation of the Slingshot pseudotime algorithm
☆69Updated last month
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☆77Updated 10 months ago
- Single cell omics biology annotations☆51Updated 8 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆126Updated last month
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆66Updated 5 months ago
- Multi-omic velocity inference☆113Updated last year
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆78Updated this week
- Non-parametric density inference for single-cell analysis.☆74Updated 7 months ago
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆31Updated 3 weeks ago
- ☆40Updated this week
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆67Updated last month
- ☆59Updated 7 months ago
- Predict RNA velocity through deep learning☆71Updated 2 years ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- ☆84Updated last week
- TACCO: Transfer of Annotations to Cells and their COmbinations☆62Updated 3 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆124Updated 7 months ago
- Gene group activity utility functions for Scanpy☆99Updated last year
- ☆46Updated last year
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆111Updated 2 months ago
- Additional code and analysis from the single-cell integration benchmarking project☆71Updated 3 years ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆116Updated last year
- ☆56Updated last year
- Accelerated, Python-only, single-cell integration benchmarking metrics☆79Updated last week
- This repository contains all code used for the Human Lung Cell Atlas project.☆57Updated 2 years ago
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆146Updated 2 years ago
- software to detect doublets☆95Updated 11 months ago
- Cell cycle inference in single-cell RNA-seq☆51Updated 2 years ago
- Metacells - Single-cell RNA Sequencing Analysis☆116Updated last year
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated 3 months ago
- ☆119Updated 6 months ago