Spatial Transcriptomics Quantification pipeline for 10x Visium and H&E-stained whole slide images
☆24Jan 23, 2026Updated 2 months ago
Alternatives and similar repositories for STQ
Users that are interested in STQ are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses.☆11Jul 25, 2024Updated last year
- Molecular analysis of pre-invasive lung cancer samples☆14Jan 18, 2019Updated 7 years ago
- ☆12Dec 16, 2021Updated 4 years ago
- A visualization app for 3D-registered data processed in ABBA and QuPath☆20Oct 21, 2022Updated 3 years ago
- 10X single cell Nanopore reads simulation workflow. Complete documentation avialable at: https://GenomiqueENS.github.io/AsaruSim/☆13Jul 27, 2025Updated 7 months 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.
- ☆28Jan 25, 2022Updated 4 years ago
- scType rewritten in python☆25Nov 7, 2024Updated last year
- Basic example of using OME-Zarr in a Nextflow pipeline☆21Jul 15, 2025Updated 8 months ago
- This is the official repository for the Human Cell Atlas Heart project.☆32Jul 28, 2020Updated 5 years ago
- An R package of Tukey inspired exploratory data analysis functions☆13Aug 1, 2025Updated 7 months ago
- ☆19Mar 16, 2026Updated last week
- Strip potentially identifying label and macro images from Aperio SVS whole slide image files☆37Apr 29, 2024Updated last year
- ☆40Jul 14, 2023Updated 2 years ago
- Spatial Transcriptomic Analysis of OSCC samples☆28Dec 24, 2025Updated 3 months ago
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- Piecewise alignment for layers of mosaics☆41Feb 18, 2026Updated last month
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆30Jul 22, 2024Updated last year
- Coincides with blogpost for using geojson and shapely☆33Nov 16, 2020Updated 5 years ago
- ☆10Mar 15, 2024Updated 2 years ago
- material related to the genetech courses☆10Sep 11, 2023Updated 2 years ago
- Morphology-Enhanced Spatial Transcriptome Analysis Integrator☆27Mar 16, 2025Updated last year
- CORNAS is a fast method for reliable DEG calls in unreplicated conditions.☆13Jul 14, 2019Updated 6 years ago
- ☆12Apr 26, 2020Updated 5 years ago
- ☆11Jun 11, 2023Updated 2 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- MethodsJ2☆14May 6, 2022Updated 3 years ago
- Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.☆31May 27, 2025Updated 9 months ago
- GitHub Action to launch a workflow using Nextflow Tower.☆12Mar 28, 2023Updated 2 years ago
- General information, resources and dicussions for the BrainGlobe project.☆11Feb 21, 2025Updated last year
- CODEX data processing code☆12Jul 1, 2025Updated 8 months ago
- ☆13Sep 18, 2018Updated 7 years ago
- CHAMMI: A benchmark for channel-adaptive models in microscopy imaging☆14Oct 23, 2024Updated last year
- QuPath extension to work with images through OMERO's web API☆10Feb 10, 2026Updated last month
- A Python interface for NIH Reporter APIs☆11Feb 4, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data☆14Dec 24, 2023Updated 2 years ago
- Evaluating the quality of a cell segmentation method without reference.☆13Jul 26, 2025Updated 7 months ago
- Code for the image processing and analysis described our Nature Protocols paper.☆10Jun 26, 2015Updated 10 years ago
- ☆13Feb 12, 2026Updated last month
- ☆24Aug 27, 2020Updated 5 years ago
- Code for RNA-seq gene coexpression analysis☆10Dec 23, 2021Updated 4 years ago
- A pipeline to transform images into valuable analysis items☆18Jun 18, 2025Updated 9 months ago