welch-lab / pyliger
Python package for integrating and analyzing multiple single-cell datasets (A Python version of LIGER)
☆28Updated 2 months ago
Related projects: ⓘ
- Single cell omics biology annotations☆45Updated this week
- ☆26Updated 8 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆39Updated 2 years ago
- ☆40Updated last week
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆56Updated 4 months ago
- SIMBA: SIngle-cell eMBedding Along with features☆17Updated 4 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆35Updated last week
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆39Updated this week
- Spatial direct messaging detected by bivariate Moran☆24Updated 4 months ago
- Python package to perform normalization and variance-stabilization of single-cell data☆21Updated 2 years ago
- ☆35Updated last month
- Python implementation of Milo for differential abundance testing on KNN graph☆60Updated 10 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆30Updated 6 months ago
- ☆47Updated 8 months ago
- Gene group activity utility functions for Scanpy☆49Updated last month
- ☆31Updated 2 weeks ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆41Updated last year
- Quasilinear data representations for single-cell omics data analysis☆42Updated last year
- ☆20Updated 4 months ago
- ☆19Updated 2 years ago
- Gene regulatory network inference for RNA velocity and pseudotime data☆22Updated 7 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆56Updated last week
- Spatially resolved transcriptomic analysis☆46Updated last year
- Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.☆46Updated 2 months ago
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆74Updated 3 weeks ago
- Repository to perform mapping of new datasets to the Human Lung Cell Atlas.☆19Updated last year
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆36Updated 2 months ago
- ☆36Updated this week
- SPROD: Spatial expression profiling de-noising☆32Updated last year
- Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets☆31Updated 5 months ago