Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
☆56Jun 9, 2026Updated 3 weeks ago
Alternatives and similar repositories for inferelator
Users that are interested in inferelator are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Transcriptional regulatory network inference from gene expression and prior information with LASSO-StARS☆15May 3, 2022Updated 4 years ago
- The Tomographer package implements the mathematical spatial image reconstruction of any set of read counts as described in the following …☆11May 15, 2021Updated 5 years ago
- BEELINE: evaluation of algorithms for gene regulatory network inference☆210May 25, 2026Updated last month
- A python package for chromVAR☆34May 1, 2023Updated 3 years ago
- Analytical tools and pipelines for bulk and single cell epigenomic and human genetic data☆26Nov 17, 2020Updated 5 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation☆29May 15, 2024Updated 2 years ago
- ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)☆15Jun 5, 2019Updated 7 years ago
- A “data light” TF-network mapping algorithm using only gene expression and genome sequence data.☆14May 31, 2021Updated 5 years ago
- Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..☆45Oct 20, 2025Updated 8 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆617Jun 26, 2025Updated last year
- ☆36Sep 2, 2022Updated 3 years ago
- Documentation and tutorials worth sharing.☆10Dec 7, 2022Updated 3 years ago
- ☆90Jun 24, 2023Updated 3 years ago
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆68Apr 5, 2024Updated 2 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- HiDeF (Hierarchical community Decoding Framework)☆15Jan 30, 2024Updated 2 years ago
- Methods for inferring undirected networks from data☆47Mar 17, 2021Updated 5 years ago
- Harmony framework for connecting scRNA-seq data from discrete time points☆54Dec 1, 2025Updated 7 months ago
- ☆15Jun 4, 2023Updated 3 years ago
- Geometry-preserving random sampling☆99Oct 29, 2024Updated last year
- Comparison of dimensionality reduction methods☆30Mar 24, 2020Updated 6 years ago
- ☆20Mar 28, 2017Updated 9 years ago
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆50Dec 12, 2019Updated 6 years ago
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆180Dec 8, 2022Updated 3 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.
- Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq d…☆21Jul 7, 2022Updated 4 years ago
- Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).☆58Oct 8, 2021Updated 4 years ago
- single nuclei RNA-seq analysis toolbox☆10Oct 26, 2016Updated 9 years ago
- The `multiGSEA` R package was designed to run a robust GSEA-based pathway enrichment for multiple omics layers.☆22May 4, 2026Updated 2 months ago
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆19Aug 12, 2025Updated 10 months ago
- This R package for performing module repertoire analyses and generating fingerprint representations☆19Sep 16, 2021Updated 4 years ago
- Clinical oncology tumor board decision support system made by the Decider project.☆15Apr 22, 2026Updated 2 months ago
- Code and analysis pipeline for NASC-seq.☆11Jun 14, 2022Updated 4 years ago
- This is the alpha version of the CellOracle package☆472Apr 30, 2026Updated 2 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Transcriptional burst kinetics inference and analysis described in the article "Genomic encoding of transcriptional burst kinetics" (Lars…☆41Apr 22, 2024Updated 2 years ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆129Jun 22, 2026Updated 2 weeks ago
- Single-cell Orientation Tracing☆22Jan 23, 2022Updated 4 years ago
- Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles☆35Apr 4, 2025Updated last year
- Code used for mouse single cell RNAseq testis atlas☆12Nov 28, 2020Updated 5 years ago
- ☆59Mar 18, 2026Updated 3 months ago
- Blood Transcription Modules for interpreting blood transcriptomics data☆11Nov 25, 2024Updated last year