andreariba / DeepCycle
Cell cycle inference in single-cell RNA-seq
☆38Updated last year
Related projects ⓘ
Alternatives and complementary repositories for DeepCycle
- ☆40Updated 6 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆60Updated 6 months ago
- Single cell omics biology annotations☆48Updated 2 months ago
- R implementation of GeneTrajectory☆49Updated 7 months ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆56Updated last month
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆40Updated last year
- Analysis of cell-cell communication at single-cell resolution☆96Updated 2 months ago
- ☆32Updated 2 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆38Updated 3 years ago
- Gene group activity utility functions for Scanpy☆56Updated 3 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆60Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆36Updated 2 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆25Updated last month
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆54Updated 7 months ago
- R package for pathway analysis in scRNA-seq data☆62Updated 3 months ago
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆37Updated 2 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆58Updated last week
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆66Updated this week
- Single-cell Lung Cancer Atlas with 1.2M cells☆59Updated last year
- ☆19Updated 2 years ago
- ☆12Updated 2 years ago
- Data processing and analysis workflow for GAGE-seq, a coassay of single-cell HiC and single-cell RNA-seq☆11Updated 7 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆57Updated 5 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆50Updated last month
- Predict RNA velocity through deep learning☆64Updated 11 months ago
- pipeline for demultiplex and align both ATAC and RNA data generated in SHARE-seq☆15Updated 2 years ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆75Updated 5 months ago
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆38Updated 3 years ago
- Collection of scripts for analysis of pan fetal immune atlas☆25Updated 2 years ago