A python package for chromVAR
☆34May 1, 2023Updated 3 years ago
Alternatives and similar repositories for pychromVAR
Users that are interested in pychromVAR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆35May 23, 2026Updated last month
- A method for analyzing scATAC-seq experiments.☆33Jun 20, 2025Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆128Jun 22, 2026Updated last week
- ☆12Aug 30, 2025Updated 10 months ago
- Learning motif contributions to cell transitions using sequence features and graphs.☆27Aug 30, 2024Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆81Updated this week
- 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
- a dataloader to work with large single cell datasets from lamindb☆40May 20, 2026Updated last month
- Functional Inference of Gene Regulation☆54Jul 5, 2024Updated last year
- Elucidating the Utility of Genomic Elements with Neural Nets☆69Dec 2, 2024Updated last year
- A curated list of awesome resources, papers, datasets, and tools related to Genomic LLMs. This repository aims to provide a comprehensive…☆18Aug 7, 2024Updated last year
- ☆15Apr 7, 2026Updated 2 months ago
- ☆51Mar 22, 2026Updated 3 months ago
- Multiome GRN inference.☆137Apr 10, 2026Updated 2 months ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Store collections of experimental data based on TileDB☆11Jun 22, 2026Updated last week
- Single-cell epigenomics analysis tools☆321Updated this week
- Pileup biallelic SNPs from single-cell and bulk RNA-seq data☆84Jun 9, 2022Updated 4 years ago
- Genomic Features in Python from BioConductor's AnnotationHub☆23Jun 22, 2026Updated last week
- ☆23Jun 5, 2021Updated 5 years ago
- Transcriptional regulatory network inference from gene expression and prior information with LASSO-StARS☆15May 3, 2022Updated 4 years ago
- In this study, we perform systematic comparative analysis of seven widely-used SNV-calling methods, including SAMtools, the GATK Best Pra…☆16Oct 16, 2019Updated 6 years ago
- ☆15Jan 9, 2022Updated 4 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.
- Pipeline to run scE2G☆44Apr 17, 2026Updated 2 months ago
- generalized principal component analysis (GLM-PCA) implemented in python☆64Feb 1, 2021Updated 5 years ago
- Machine learning methods for DNA sequence analysis.☆63Jun 10, 2026Updated 3 weeks ago
- muon is a multimodal omics Python framework☆272Jun 22, 2026Updated last week
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆260Jan 16, 2026Updated 5 months ago
- ☆22Jun 12, 2026Updated 2 weeks ago
- Molecular interactions inference from single-cell multi-omics data☆31May 7, 2026Updated last month
- Code for the analysis performed in the paper "Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromati…☆13Oct 16, 2025Updated 8 months ago
- ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)☆15Jun 5, 2019Updated 7 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Assembles a graph manifold from time series single-cell RNAseq data☆18May 11, 2021Updated 5 years ago
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆69Apr 1, 2026Updated 3 months ago
- Parse ArchR arrow files to anndata h5ad☆16Dec 14, 2023Updated 2 years ago
- Universal Single-Cell Genomics Preprocessing package☆49Feb 21, 2026Updated 4 months ago
- ☆15Jun 4, 2023Updated 3 years ago
- ☆12Oct 4, 2021Updated 4 years ago
- An implementation of MNN (Mutual Nearest Neighbors) correct in python.☆77Jan 9, 2023Updated 3 years ago