flatironinstitute / inferelator
Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
☆48Updated 8 months ago
Alternatives and similar repositories for inferelator:
Users that are interested in inferelator are comparing it to the libraries listed below
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆61Updated 10 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Geometry-preserving random sampling☆80Updated 4 months ago
- Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens☆41Updated last year
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆56Updated 11 months ago
- Single cell omics biology annotations☆50Updated 2 weeks ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆66Updated last week
- pseudobulking on an AnnData object☆29Updated last week
- Context specific and dynamic gene regulatory network reconstruction and analysis☆114Updated 6 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆69Updated 2 months ago
- ☆35Updated 2 weeks ago
- Functional Inference of Gene Regulation☆41Updated 8 months ago
- ☆36Updated 6 months ago
- Imputation method for scRNA-seq based on low-rank approximation☆74Updated last year
- Metacells - Single-cell RNA Sequencing Analysis☆103Updated 5 months ago
- Molecular interactions inference from single-cell multi-omics data☆22Updated 4 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 9 months ago
- Quasilinear data representations for single-cell omics data analysis☆42Updated last year
- ☆59Updated 6 months ago
- Single-Cell Clustering Assessment Framework☆99Updated last year
- ☆55Updated 6 years ago
- Multi-omic velocity inference☆110Updated 5 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆73Updated 11 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆39Updated 2 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆61Updated 6 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆63Updated last month
- A docker image for single-cell analysis☆82Updated last month
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆48Updated 3 weeks ago
- Create cisTarget databases☆46Updated last month