A comprehensive tool to infer TF-centred, spatial gene regulatory networks for the spatially resolved transcriptomic data.
☆23Apr 27, 2025Updated last year
Alternatives and similar repositories for SpaGRN
Users that are interested in SpaGRN are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- VT3D: a versatile Visualization Toolbox for 3D spatial transcriptomics atlas☆14Nov 6, 2024Updated last year
- SpaceX: Gene Co-expression Network Estimation for Spatial Transcriptomics☆20Apr 5, 2023Updated 3 years ago
- A tool to use stereo-seq GEM and ssDNA to generate single-cell and 3D spatial resolved transtriptomics data☆14Oct 12, 2023Updated 3 years ago
- ☆60Jan 2, 2024Updated 2 years ago
- Gene orthologs for model organisms in a tidy data format☆16Sep 29, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆14Nov 29, 2022Updated 3 years ago
- Metagenomics Taxonomic Reads Assembly Single-Species☆16May 25, 2023Updated 3 years ago
- ☆16Aug 22, 2024Updated 2 years ago
- A toolkit of spatial transcriptomic analysis.☆295Jul 17, 2026Updated 3 months ago
- Calibrated clustering with artificial variables to avoid over-clustering in single-cell RNA-sequencing☆21Nov 18, 2025Updated 10 months ago
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 5 years ago
- scPair: Boosting single cell multimodal analysis by leveraging single cell atlases and implicit feature selection☆13Sep 8, 2025Updated last year
- Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks☆35Aug 16, 2021Updated 5 years ago
- ☆16Jan 24, 2023Updated 3 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.
- An R package to implement Differential Gene Set Enrichment Analysis (DGSEA): A statistical approach to quantify the relative enrichment o…☆15Apr 12, 2023Updated 3 years ago
- A spatial omics data analysis tool that enables both unsupervised and supervised discovery of complex tissue cellular neighborhoods from …☆27Jan 31, 2026Updated 8 months ago
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆20Aug 12, 2025Updated last year
- Individual level Differential Expression Analysis for Single cells☆28Dec 24, 2022Updated 3 years ago
- inferring regulatory cellular dynamics☆195Sep 24, 2026Updated 3 weeks ago
- The codes and files for the study of subsolid nodules (SSN).☆15Oct 13, 2020Updated 6 years ago
- Reproducible analyses for the NicheCompass manuscript☆15Oct 5, 2026Updated last week
- SRY: an effective method for sorting long-read of sex-limited (Y or W) chromosome.☆20Aug 1, 2023Updated 3 years ago
- Serves a web interface and RESTful API for reference genome assets.☆12Apr 11, 2026Updated 6 months 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.
- Spatial direct messaging detected by bivariate Moran☆34Jul 16, 2025Updated last year
- ☆14May 1, 2026Updated 5 months ago
- This is an updated mirror of the original PacBio Read Simulator☆40Mar 30, 2018Updated 8 years ago
- A tool for spatial omics single-modal clustering, multi-modal clustering, slice alignment, cross-modal alignment, multi-modal alignment, …☆23May 6, 2026Updated 5 months ago
- Supplementary files and notebooks to recreate figures.☆24Aug 4, 2026Updated 2 months ago
- HAST: Haplotype-Resolved Assembly for Synthetic Long Reads Using A Trio-Binning Strategy☆18Apr 20, 2023Updated 3 years ago
- A pipeline to de novo assemble the stLFR reads using Supernova Assembler☆20Feb 22, 2023Updated 3 years ago
- DECIPHER for learning high-fidelity disentangled embeddings from spatial omics data☆26Jan 20, 2026Updated 8 months ago
- cross-species analysis of cell identities, markers and regulations☆13Jul 11, 2025Updated last year
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Flexible Integration of single-cell RNA-sequencing data for large-scale Multi-tissue cell atlas datasets☆13Sep 20, 2022Updated 4 years ago
- ☆21Jun 23, 2021Updated 5 years ago
- Repository for the tutorials of STARNet, a computational framework designed to decipher spatially specific gene regulatory networks (GRNs…☆15Jun 9, 2026Updated 4 months ago
- ☆42Jun 8, 2026Updated 4 months ago
- ☆25Jul 15, 2026Updated 3 months ago
- Single-cell Graph Cuts Optimization☆17Apr 27, 2024Updated 2 years ago
- Reproducibility of results/figures from scvi-hub paper☆15Apr 16, 2025Updated last year