Class for getting ROIs and masks from annotated pyramidal images. A work in progress.
☆12Jul 3, 2021Updated 5 years ago
Alternatives and similar repositories for WSI_handling
Users that are interested in WSI_handling are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Preprocessing module for large histological images☆22Jun 16, 2023Updated 3 years ago
- A module for 3D image augmentations for deep learning, specifically medical images such as CT, MRI.☆27Jul 14, 2020Updated 6 years ago
- Tools for whole slide image (WSI) processing. Especially for (pairwise) patch extraction, annotation parsing and data preparation for dee…☆58Dec 10, 2024Updated last year
- Image filters for digital pathology: detect pen marks, background, and artifacts. Use them for preprocessing towards deep learning☆29Sep 30, 2020Updated 5 years ago
- GWAS Survival Package in R☆13Jun 12, 2026Updated 2 months 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.
- un nnUnet on Windows☆13Feb 27, 2024Updated 2 years ago
- Tiling patches or generate patches of whole slide image based on Openslide☆13Nov 20, 2020Updated 5 years ago
- Multiple instance learning for weakly supervised learning☆37Sep 20, 2019Updated 6 years ago
- color/stain normalization on histological images using Reinhard, Macenko and Vahadane methods☆17Dec 14, 2021Updated 4 years ago
- a pipeline to process data of PEM-seq or data similar, which is more comprehensive than superQ☆11Apr 28, 2026Updated 3 months ago
- this repo is for Grand Challenge WSSS4LUAD, detail information about the contest is on https://wsss4luad.grand-challenge.org/WSSS4LUAD/☆19Apr 29, 2022Updated 4 years ago
- This repository includes the codes and descriptions to create a fully annotated dataset of nuclei from cryosectioned histological samples…☆45Feb 8, 2023Updated 3 years ago
- Coincides with blogpost for using geojson and shapely☆33Nov 16, 2020Updated 5 years ago
- This repo contains source code and datasets used in code for Deep transfer learning enables lesion tracing of circulating tumor cells(CTC…☆12Jun 26, 2023Updated 3 years 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.
- Fast String Subsequence Kernel (SSK) implementation in Python (Cython)☆10Jan 16, 2021Updated 5 years ago
- Quantum measurement classification☆14Nov 24, 2021Updated 4 years ago
- TCGA BLCA tmb prediction by Hongming Xu☆13Nov 1, 2020Updated 5 years ago
- Survival analysis in MATLAB☆21Aug 4, 2025Updated last year
- Blazing fast nuclei segmentation for brightfield Whole Slide Images☆39Aug 3, 2026Updated 2 weeks ago
- Snakemake workflow for somatic mutation detection without matched normal samples☆14Mar 4, 2023Updated 3 years ago
- A rapido and lightweight method for PGS computation☆14Apr 20, 2026Updated 3 months ago
- emapper-utils: utils for parse emapper result☆10Sep 22, 2020Updated 5 years ago
- A code for extracting annotated regions from whole slide images (WSIs) anotated in Aperio Imagescope☆12Jul 3, 2020Updated 6 years ago
- 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.
- A multi-instance learning on pathological images to predict MSI☆14Sep 30, 2020Updated 5 years ago
- HistoQC is an open-source quality control tool for digital pathology slides☆329Aug 3, 2026Updated 2 weeks ago
- Interpretable convolutional neural networks on multi-omics data predict long-term survival in glioblastoma☆15Jun 30, 2023Updated 3 years ago
- Metagenomic search for novel CRISPR-transposons☆12Sep 30, 2021Updated 4 years ago
- Deep-learning (U-NET) CNN model for fully automatic glioma segmentation in 3D volume of MRI data, Survival prediction using different alg…☆12Apr 19, 2021Updated 5 years ago
- MICCAI2021 Paper: Self-supervised visual representation learning for histopathological images☆27Aug 29, 2022Updated 3 years ago
- Predicting Axillary Lymph Node Metastasis in Early Breast Cancer Using Deep Learning on Primary Tumor Biopsy Slides, BCNB Dataset☆68Nov 10, 2025Updated 9 months ago
- A tool for visualizing ABC enhancer-gene connections in the context of genetic variants.☆15May 3, 2023Updated 3 years ago
- Reference data for cell-type assignment with clustifyr☆13Nov 3, 2022Updated 3 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.
- Digital Pathology datasets and where to find them☆15Jun 18, 2021Updated 5 years ago
- Scripts and Data associated with our publication on genomic signatures to discriminate LUAD and LUSC lung cancer types using TCGA data☆11Mar 2, 2022Updated 4 years ago
- Comparison and fusion of deep learning and radiomics features of ground-glass nodules to predict the invasiveness risk of stage-I lung ad…☆17Sep 25, 2019Updated 6 years ago
- ☆10Jan 17, 2023Updated 3 years ago
- ☆48Jan 19, 2026Updated 6 months ago
- [MICCAI2023] XSurv: Merging-Diverging Hybrid Transformer Networks for Survival Prediction☆12Oct 2, 2023Updated 2 years ago
- ☆18Jan 15, 2020Updated 6 years ago