Chromosome + Cell Mini-Pipeline
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2026
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| _version_ | 1866901102999371776 |
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| author | Younis, Almotasem Bellah |
| author_facet | Younis, Almotasem Bellah |
| contents | A combined genomics and microscopy analysis pipeline demonstrating end-to-end Hi-C chromatin analysis and nuclei segmentation. Uses cooltools/cooler for Hi-C (compatible with HiCognition) and StarDist for nuclei segmentation. Includes AI-powered phenotype analysis (OpenAI Vision) with structured outputs. Streamlit dashboard with sidebar navigation, rate limiting, and public deployment support. Built for reproducibility and alignment with chromosome organization research. |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_18521417 |
| institution | Zenodo |
| language | |
| publishDate | 2026 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | Chromosome + Cell Mini-Pipeline Younis, Almotasem Bellah Hi-C chromatin cooler cooltools nuclei segmentation StarDist microscopy bioinformatics vision-language model OpenAI phenotype analysis A combined genomics and microscopy analysis pipeline demonstrating end-to-end Hi-C chromatin analysis and nuclei segmentation. Uses cooltools/cooler for Hi-C (compatible with HiCognition) and StarDist for nuclei segmentation. Includes AI-powered phenotype analysis (OpenAI Vision) with structured outputs. Streamlit dashboard with sidebar navigation, rate limiting, and public deployment support. Built for reproducibility and alignment with chromosome organization research. |
| title | Chromosome + Cell Mini-Pipeline |
| topic | Hi-C chromatin cooler cooltools nuclei segmentation StarDist microscopy bioinformatics vision-language model OpenAI phenotype analysis |
| url | https://doi.org/10.5281/zenodo.18521417 |