End-to-end pipeline for segmenting cell nuclei on histology slides
☆16Jul 19, 2022Updated 3 years ago
Alternatives and similar repositories for segmentation
Users that are interested in segmentation are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Implementation of regular and multiscale parametric t-SNE in pytorch☆27Sep 15, 2022Updated 3 years ago
- ☆13Jan 24, 2024Updated 2 years ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆43Mar 2, 2025Updated last year
- ☆14Jan 16, 2019Updated 7 years ago
- Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper☆27Nov 21, 2022Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Visualizing the space of chemical reactions with the parametric (learnable) t-SNE.☆16May 5, 2022Updated 3 years ago
- Pipeline for processing of GoT-ChA genotyping data and downstream analysis☆15Mar 17, 2025Updated last year
- Spatiotemporal single-cell RNA sequencing of developing hearts reveals interplay between cellular differentiation and morphogenesis☆13Oct 31, 2023Updated 2 years ago
- SPATA Package for spatial gene expression analysis☆21May 6, 2022Updated 3 years ago
- ☆12May 29, 2024Updated last year
- Toolbox of the Human Neural Organoid Cell Atlas☆32Updated this week
- ☆21Updated this week
- Automatically annotate cell types, consistently across samples.☆20Updated this week
- A toolking for cell type hierarchies: marker selection & consistent classification☆22Nov 26, 2023Updated 2 years 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.
- Whole genome workflows☆13Nov 9, 2024Updated last year
- MERFISH decoding software☆26Aug 16, 2025Updated 7 months ago
- Variance stabilizing transformation for Gamma Poisson distributed data☆22Apr 11, 2023Updated 3 years ago
- ☆14Feb 24, 2026Updated last month
- ☆72May 28, 2025Updated 10 months ago
- ☆25Feb 20, 2025Updated last year
- Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData☆15Feb 27, 2026Updated last month
- Scripts used to generate the data/figures contained in "Single Cell Transcriptomics Reveals Cell Type Specific Diversification in Human H…☆13Mar 10, 2023Updated 3 years ago
- R API and htmlwidget for Vitessce☆45Aug 13, 2025Updated 7 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Collection of analysis methods for small count data generated by rafalab members (the methods, not the data).☆22Jul 10, 2024Updated last year
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆17Sep 19, 2025Updated 6 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆68Jul 2, 2025Updated 9 months ago
- ☆12Nov 20, 2023Updated 2 years ago
- ☆18Feb 18, 2021Updated 5 years ago
- Pan-cancer quantitative histopathology analysis using deep learning☆12Mar 1, 2022Updated 4 years ago
- Probabilistic factor models for spatially correlated data. Includes nonnegative and real-valued versions.☆18Dec 5, 2024Updated last year
- Code and data sharing of Liu et al. 2023 manuscript☆17Apr 18, 2023Updated 2 years ago
- scVI extension for unspliced RNA☆15May 18, 2025Updated 10 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- ☆11Feb 18, 2019Updated 7 years ago
- A utility for previewing Jupyter notebooks with a double click.☆16Jun 1, 2025Updated 10 months ago
- A simple native R reader for Zarr Arrays☆49Updated this week
- Fast reconstruction of spatial networks from bioimages.☆26Mar 27, 2026Updated 2 weeks ago
- Spatial Transcriptomic Analysis of OSCC samples☆28Dec 24, 2025Updated 3 months ago
- Code accompanying the manuscript "Broad transcriptomic dysregulation across the cerebral cortex in ASD".☆13Aug 10, 2022Updated 3 years ago
- Cellular Genetics Informatics Notebooks☆24Nov 7, 2025Updated 5 months ago