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    Repositories list

    11 repositories

    • histolytics

      Public
      Interpretable Analysis of Histological WSIs
      deep-learningspatial-analysisdigital-pathology
      deep-learningspatial-analysisdigital-pathologywsipanoptic-segmentationwsi-images
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•21•0•5•Updated Oct 20, 2026Oct 20, 2026

    • jellyfisher

      Public
      R htmlwidget for Jellyfish
      bioinformaticsrtumor-evolution
      bioinformaticsrtumor-evolutiontumor-heterogeneityphylogenetic-analysisvisualization-tool
      R
      •
      Other
      •0•5•0•0•Updated Aug 21, 2026Aug 21, 2026

    • jellyfish

      Public
      Jellyfish plots for integrative visualization of spatio-temporal tumor evolution and clonal dynamics
      bioinformaticstumor-evolutiontumor-heterogeneity
      bioinformaticstumor-evolutiontumor-heterogeneityphylogenetic-analysisvisualization-tool
      TypeScript
      •
      MIT License
      •0•4•7•0•Updated Jul 1, 2026Jul 1, 2026

    • ADCs

      Public
      MIT License
      •0•0•0•0•Updated Jun 17, 2026Jun 17, 2026

    • SegmentQTL

      Public
      SegmentQTL is a segmentation-aware molecular quantitative trait loci (molQTL) analysis tool designed for copy number–driven cancers.
      pythonbioinformatics
      pythonbioinformatics
      Python
      •
      MIT License
      •0•4•0•0•Updated May 29, 2026May 29, 2026

    • Actionable

      Public
      Custom code for project Actionable: multi-omics analysis for curating credible actionable driver aberrations in HGSC.
      R
      •
      MIT License
      •1•2•0•0•Updated May 11, 2026May 11, 2026

    • pvalplot

      Public
      Create grouped plots with statistical significance annotations easily in python.
      Python
      •
      MIT License
      •0•0•0•1•Updated Sep 17, 2025Sep 17, 2025

    • CIN-subtypes

      Public
      Discovery of ovarian cancer subtypes based on chromosomal instability signatures
      R
      •0•6•0•0•Updated Jun 27, 2025Jun 27, 2025

    • AlleleDoser

      Public
      Germline variant analysis with copy number and phased genotype integration
      R
      •
      MIT License
      •0•1•0•0•Updated Feb 27, 2025Feb 27, 2025

    • genomespy-paper-2024-spec

      Public
      Visualization specification related to the GenomeSpy paper by Lavikka, et al. 2024
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •1•0•0•0•Updated Jun 14, 2024Jun 14, 2024

    • tumor-evolution-2023

      Public
      Evolutionary states and trajectories characterized by distinct pathways stratify patients with ovarian high grade serous carcinoma (HGSC)
      R
      •
      MIT License
      •0•5•0•0•Updated Apr 13, 2024Apr 13, 2024
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