deep learning pipeline repository for the paper "Geospatial immune variability illuminates differential evolution of lung adenocarcinoma"
☆53May 27, 2020Updated 5 years ago
Alternatives and similar repositories for compath
Users that are interested in compath are comparing it to the libraries listed below
Sorting:
- HoVer-Net inference code for simultaneous nuclear segmentation and classification☆73Nov 21, 2022Updated 3 years ago
- A biologically interpretable integrative deep learning model that integrates PAthological images and GEnomic data☆18Jun 22, 2020Updated 5 years ago
- Image-to-Image Translation in PyTorch☆24Sep 21, 2023Updated 2 years ago
- Data and code to accompany our Nature publication☆48May 3, 2022Updated 3 years ago
- Whole Slide Digital Pathology Image Tissue Localization☆45Oct 3, 2023Updated 2 years ago
- Coincides with blogpost for using geojson and shapely☆33Nov 16, 2020Updated 5 years ago
- An R package to plot maps of clone distributions in somatic evolution☆19Jan 8, 2024Updated 2 years ago
- ☆14Nov 21, 2022Updated 3 years ago
- ☆16Jan 18, 2023Updated 3 years ago
- Computational Framework to Analyse Spatial Heterogeneity in Visum, IMC or MIBI data sets☆12May 3, 2022Updated 3 years ago
- Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.☆696Oct 27, 2023Updated 2 years ago
- The AstroPath Pipeline was developed to process whole slide multiplex immunofluorescence data from microscope to database at single cell …☆19Apr 21, 2025Updated 11 months ago
- Deep Lesion Tracker☆22Apr 12, 2021Updated 4 years ago
- Train a model to predict gene expression from histology slides.☆112Jul 6, 2022Updated 3 years ago
- Toolkit to help develop and run QuPath scripts from Eclipse and other IDEs, including over remote connections. (See README.md for more in…☆17Aug 19, 2020Updated 5 years ago
- ☆11Jan 13, 2020Updated 6 years ago
- Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data☆21Apr 22, 2024Updated last year
- Code for NeurIPS 2024 paper "A SARS-CoV-2 Interaction Dataset and VHH Sequence Corpus for Antibody Language Models"☆14Oct 17, 2024Updated last year
- CircRNA testing and ploting R package☆10Nov 23, 2020Updated 5 years ago
- ☆13Jul 5, 2019Updated 6 years ago
- Weakly Supervised Mitosis Detection in Breast Histopathology Images using Concentric Loss☆25Nov 14, 2019Updated 6 years ago
- Nuclei segmentation and classification (Cancer cells)☆25Jun 4, 2024Updated last year
- A Python package for handling histopathology whole-slide images using multiple instance learning (MIL) techniques.☆29May 21, 2024Updated last year
- An interactive web portal for exploring immuno-oncology data. This repo now superseded by iatlas-app☆49Feb 26, 2021Updated 5 years ago
- ☆10Sep 20, 2022Updated 3 years ago
- Deep learning on histopathology images.☆142Sep 8, 2021Updated 4 years ago
- Histopathology Image Analysis☆94Jul 6, 2023Updated 2 years ago
- Interpretable Gland-Graph Networks☆22Mar 7, 2024Updated 2 years ago
- Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology☆129May 29, 2025Updated 9 months ago
- PAthway Representation and Analysis by Direct Inference on Graphical Models☆46Feb 7, 2018Updated 8 years ago
- ☆19Apr 8, 2025Updated 11 months ago
- A pipeline to segment tissue from the background in histological images☆72Apr 2, 2023Updated 2 years ago
- Robust quad-tree based registration on whole slide images☆21Apr 2, 2025Updated 11 months ago
- Pipeline for computational pathology☆38Jan 4, 2024Updated 2 years ago
- Evaluation code for the PanNuke dataset☆29Oct 20, 2020Updated 5 years ago
- R package to do enrichment analysis for neoantigens☆13Feb 21, 2022Updated 4 years ago
- Analysis of snRNA-seq2 data coming from 3 months old mouse liver, dissecting the influence ploidy has on gene expression.☆14Dec 6, 2021Updated 4 years ago
- A package for the analysis of Imaging Mass Cytometry data☆15Mar 5, 2026Updated 2 weeks ago
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆33Updated this week