Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
☆56Jul 8, 2024Updated last year
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☆209Updated this week
- 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
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- 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)☆14Jun 5, 2019Updated 6 years ago
- A “data light” TF-network mapping algorithm using only gene expression and genome sequence data.☆13May 31, 2021Updated 4 years ago
- Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..☆45Oct 20, 2025Updated 7 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆607Jun 26, 2025Updated 11 months ago
- ☆36Sep 2, 2022Updated 3 years ago
- Documentation and tutorials worth sharing.☆10Dec 7, 2022Updated 3 years ago
- ☆89Jun 24, 2023Updated 2 years ago
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆67Apr 5, 2024Updated 2 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.
- 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 5 months ago
- ☆15Jun 4, 2023Updated 2 years ago
- Geometry-preserving random sampling☆96Oct 29, 2024Updated last year
- Comparison of dimensionality reduction methods☆30Mar 24, 2020Updated 6 years ago
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆49Dec 12, 2019Updated 6 years ago
- ☆20Mar 28, 2017Updated 9 years ago
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆180Dec 8, 2022Updated 3 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.
- 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 3 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.☆21May 4, 2026Updated 3 weeks ago
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆19Aug 12, 2025Updated 9 months ago
- This R package for performing module repertoire analyses and generating fingerprint representations☆18Sep 16, 2021Updated 4 years ago
- Clinical oncology tumor board decision support system made by the Decider project.☆14Apr 22, 2026Updated last month
- Code and analysis pipeline for NASC-seq.☆11Jun 14, 2022Updated 3 years ago
- This is the alpha version of the CellOracle package☆456Apr 30, 2026Updated 3 weeks 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…☆40Apr 22, 2024Updated 2 years ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆128Apr 14, 2026Updated last month
- 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 2 months ago
- Blood Transcription Modules for interpreting blood transcriptomics data☆11Nov 25, 2024Updated last year