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Title: GitHub - MICS-Lab/STHELAR: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation · GitHub

Open Graph Title: GitHub - MICS-Lab/STHELAR: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation

X Title: GitHub - MICS-Lab/STHELAR: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation

Description: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation - MICS-Lab/STHELAR

Open Graph Description: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation - MICS-Lab/STHELAR

X Description: A multi-tissue dataset linking spatial transcriptomics and histology for cell type annotation - MICS-Lab/STHELAR

Opengraph URL: https://github.com/MICS-Lab/STHELAR

X: @github

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Links:

Skip to content	https://github.com/MICS-Lab/STHELAR#start-of-content
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STHELAR	https://github.com/MICS-Lab/STHELAR
Code	https://github.com/MICS-Lab/STHELAR
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	https://github.com/MICS-Lab/STHELAR
STHELAR	https://github.com/MICS-Lab/STHELAR
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Readme	https://github.com/MICS-Lab/STHELAR#readme-ov-file
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15 Commits	https://github.com/MICS-Lab/STHELAR/commits/master/
	https://github.com/MICS-Lab/STHELAR/commits/master/
data	https://github.com/MICS-Lab/STHELAR/tree/master/data
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	https://github.com/MICS-Lab/STHELAR/blob/master/images/banner_github.png
	https://doi.org/10.5281/zenodo.15849372
doi:10.1038/s41597-026-06937-6	https://doi.org/10.1038/s41597-026-06937-6
CellViT_for_STHELAR github	https://github.com/MICS-Lab/CellViT_for_STHELAR
	https://github.com/MICS-Lab/STHELAR/blob/master/images/BioImage_Archive_EMBL.jpg
Data description	https://github.com/MICS-Lab/STHELAR#data-description
doi: 10.6019/S-BIAD2146	https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2146
	https://github.com/MICS-Lab/STHELAR/blob/master/images/HuggingFace_logo.png
doi: 10.57967/hf/6008	https://huggingface.co/datasets/FelicieGS/STHELAR_40x
doi: 10.57967/hf/6009	https://huggingface.co/datasets/FelicieGS/STHELAR_20x
	https://github.com/MICS-Lab/STHELAR#overview
	https://github.com/MICS-Lab/STHELAR/blob/master/images/fig_recap.png
	https://github.com/MICS-Lab/STHELAR#code-pipeline
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	https://github.com/MICS-Lab/STHELAR#1-get-sdata
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	https://github.com/MICS-Lab/STHELAR#4-wsi-features
	https://github.com/MICS-Lab/STHELAR#5-build-final-dataset
	https://github.com/MICS-Lab/STHELAR#6-analyze-trained-model
CellViT_for_STHELAR github	https://github.com/MICS-Lab/CellViT_for_STHELAR
	https://github.com/MICS-Lab/STHELAR#cellvit-cell-type-classifier-additional-analysis---as-a-complement-to-cellvit_for_sthelar-github
	https://github.com/MICS-Lab/STHELAR#data-description
doi: 10.6019/S-BIAD2146	https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2146
	https://github.com/MICS-Lab/STHELAR#a-spatialdata-object-for-each-slide-in-zarr-format
	https://github.com/MICS-Lab/STHELAR#a-table-summarizing-all-information-related-to-cell-type-labels
	https://github.com/MICS-Lab/STHELAR#he-patches-with-corresponding-segmentation-and-classification-masks
	https://github.com/MICS-Lab/STHELAR#data-for-cellvit-fine-tuning
	https://github.com/MICS-Lab/STHELAR#cellvit-fine-tuning-outputs
	https://github.com/MICS-Lab/STHELAR#analysis-of-the-fine-tuned-cellvit-models
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Readme	https://github.com/MICS-Lab/STHELAR#readme-ov-file
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1 fork	https://github.com/MICS-Lab/STHELAR/forks
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