Repositories list

• SegmentQTL

  Public
  SegmentQTL is a segmentation-aware molecular quantitative trait loci (molQTL) analysis tool designed for copy number–driven cancers.

  pythonbioinformatics

  Python

  •

  MIT License

  •0•4•0•0•Updated Feb 9, 2026Feb 9, 2026

• histolytics

  Public
  Interpretable Analysis of Histological WSIs

  deep-learningspatial-analysisdigital-pathology+ 3wsipanoptic-segmentationwsi-images

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•15•0•0•Updated Jan 30, 2026Jan 30, 2026

• Actionable

  Public
  Custom code for project Actionable: multi-omics analysis for curating credible actionable driver aberrations in HGSC.

  R

  •

  MIT License

  •1•1•0•0•Updated Dec 10, 2025Dec 10, 2025

• jellyfish

  Public
  Jellyfish plots for integrative visualization of spatio-temporal tumor evolution and clonal dynamics

  bioinformaticstumor-evolutiontumor-heterogeneity+ 2phylogenetic-analysisvisualization-tool

  TypeScript

  •

  MIT License

  •0•4•7•0•Updated Dec 2, 2025Dec 2, 2025

• jellyfisher

  Public
  R htmlwidget for Jellyfish

  bioinformaticsrtumor-evolution+ 3tumor-heterogeneityphylogenetic-analysisvisualization-tool

  R

  •

  Other

  •0•5•0•0•Updated Nov 26, 2025Nov 26, 2025

• 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•4•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

  •0•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