Machine learning-based approach for the inference of gene regulatory networks from expression data.
☆102Sep 24, 2021Updated 5 years ago
Alternatives and similar repositories for GENIE3
Users that are interested in GENIE3 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Semi-parametric approach for the inference of gene regulatory networks from time series of expression data☆29Jun 23, 2025Updated last year
- AR1MA1 - VBEM reverse engineering GRNs method☆11Sep 26, 2019Updated 7 years ago
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆71Apr 5, 2024Updated 2 years ago
- SINCERITIES is a tool for inferring gene regulatory networks from time-stamped cross-sectional single cell transcriptional expression pro…☆15Oct 16, 2017Updated 8 years ago
- A R/MATLAB package to construct and compare gene regulatory networks from single-cell transcriptomic data☆45Sep 29, 2026Updated last week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- BEELINE: evaluation of algorithms for gene regulatory network inference☆217Jul 11, 2026Updated 2 months ago
- Fit phenomenological sigmoid and impulse curves with priors to improve interpretability☆10May 29, 2024Updated 2 years ago
- Scalable inference of gene regulatory networks using Apache Spark and XGBoost☆22Feb 8, 2018Updated 8 years ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆642Jun 26, 2025Updated last year
- Project description and analytic scripts for cis/trans regulation of fiber development in G. hirsutum☆18Dec 19, 2023Updated 2 years ago
- ☆16Apr 23, 2024Updated 2 years ago
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆497Apr 5, 2024Updated 2 years ago
- Cell cycle analysis of single-cell proteomic and transcriptomic data for the FUCCI cell model☆14Oct 19, 2023Updated 2 years ago
- Dashboard for the Inference and Analysis of Networks from Expression data☆16Jan 8, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- covolutional neural network based coexpression analysis☆79Jun 13, 2020Updated 6 years ago
- Network Reverse Engineering through AP inference of Mutual Information☆92Mar 6, 2023Updated 3 years ago
- GENIE3 (GEne Network Inference with Ensemble of trees) R-package☆38Apr 5, 2022Updated 4 years ago
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆50Dec 12, 2019Updated 6 years ago
- PyRice is an API to access some Rice public databases at the same time with consistent output. PyRice design is modular and implements a …☆13Dec 12, 2024Updated last year
- Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.☆56Jun 9, 2026Updated 4 months ago
- ☆15Feb 22, 2022Updated 4 years ago
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Jul 19, 2022Updated 4 years ago
- ☆33Oct 4, 2021Updated 5 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Synthesis and Reprogramming of Most Permissive Boolean Networks☆17Sep 1, 2026Updated last month
- ☆15Jun 4, 2023Updated 3 years ago
- In-depth analysis of normalization and transformation methods for building coexpression networks from RNA-seq data.☆15Aug 4, 2023Updated 3 years ago
- Modeling the genomic regulatory codes of fly, mouse, worm, and fish with deep learning☆17Apr 6, 2021Updated 5 years ago
- ☆32May 19, 2019Updated 7 years ago
- Transcriptome-wide network☆16Jul 27, 2019Updated 7 years ago
- gene regulatory network reconstruction from scRNA-Seq☆25Feb 10, 2022Updated 4 years ago
- Gene Regulatory Graph Neural Networks☆37Jun 21, 2022Updated 4 years ago
- scBoolSeq: scRNA-Seq data binarisation and synthetic generation from Boolean dynamics☆16Sep 3, 2026Updated last month
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CeSpGRN: Inferring cell specific GRN using single-cell gene expression data☆22Mar 23, 2026Updated 6 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Jan 22, 2025Updated last year
- RcisTarget: Transcription factor binding motif enrichment☆50Mar 4, 2024Updated 2 years ago
- ComBat-ref is a Simple and Highly Effective Batch Effect Correction Method for RNA-seq Count Data☆17Aug 4, 2026Updated 2 months ago
- Transcriptional regulatory network inference from gene expression and prior information with LASSO-StARS☆15Sep 4, 2026Updated last month
- This is the alpha version of the CellOracle package☆501Apr 30, 2026Updated 5 months ago
- A python package for chromVAR☆35May 1, 2023Updated 3 years ago