Automate whole-slide image tile extraction and preprocessing with tissue masking.
npx skills add https://github.com/swaruplab/operon --skill histolab-swaruplab
Please help me install this Agent Skill. Skill: histolab Source: https://github.com/swaruplab/operon/tree/main/src-tauri/protocols/histolab Command: npx skills add https://github.com/swaruplab/operon --skill histolab-swaruplab
Automates the end-to-end processing of whole-slide images, enabling researchers and clinicians to quickly generate tissue-focused tiles for downstream analysis without manual preprocessing.
Load a slide and run the default tiling workflow to extract tissue tiles and generate preprocessing outputs.
High-intent search queries and answers about installing and using this skill.
You can extract tiles from whole-slide images using RandomTiler, GridTiler, or ScoreTiler. These methods automate tissue-focused tile generation by applying tissue masks to filter relevant regions for downstream analysis.
Tissue masking uses predefined masks like TissueMask or BiggestTissueBoxMask to identify tissue regions. It filters extracted tiles by retaining only those covering actual tissue areas, discarding empty background.
Yes, histolab supports both research and clinical contexts. It applies to digital pathology workflows requiring tissue masking, tile sampling, and preprocessing pipelines across these environments.
Yes, you can apply preprocessing pipelines using image filters and morphological operations. These enhance tissue features within the extracted tiles for subsequent analysis.
The best way to sample tiles is using end-to-end tiling with RandomTiler, GridTiler, or ScoreTiler. These automate tissue-focused tile sampling across whole-slide images, eliminating manual preprocessing.
Reference documentation is stored under the references directory. It provides workflow guidance and troubleshooting for tile extraction and preprocessing of whole-slide images.
sanand0Process whole slide images for tissue detection, segmentation, and tile extraction.
robotlearning123Process whole slide images by detecting tissue regions and extracting tiles.
jackspaceExtract informative tiles and detect tissue regions from whole slide images.
RamanEbrahimiAutomate tissue detection, tile extraction, and preprocessing for whole slide images.
