Repositories list

• savana

  Public
  Somatic structural variant caller for long-read data

  Python

  •

  Apache License 2.0

  •7•79•13•0•Updated Jun 11, 2025Jun 11, 2025

• ClonalSim

  Public
  Python

  •

  Other

  •0•1•0•0•Updated May 25, 2025May 25, 2025

• DeMethify

  Public
  DeMethify is a suite of methylation deconvolution algorithms that mainly revolves around adapted non-negative matrix factorization, offering a versatile toolbox for heterogeneous methylation data.

  python

  Jupyter Notebook

  •0•1•0•0•Updated Mar 30, 2025Mar 30, 2025

• osteosarcoma_evolution

  Public
  Code for the analysis of the mechanisms underpinning osteosarcoma genome complexity and evolution

  Shell

  •2•3•0•0•Updated Jan 17, 2025Jan 17, 2025

• savana_manuscript_benchmarking_code

  Public
  R code to load and compare SVs and SCNAs from SAVANA manuscript

  R

  •1•1•0•0•Updated Dec 29, 2024Dec 29, 2024

• ReConPlot

  Public
  HTML

  •

  GNU General Public License v3.0

  •2•23•1•0•Updated Dec 18, 2024Dec 18, 2024

• SComatic

  Public
  A tool for detecting somatic variants in single cell data

  Python

  •

  Other

  •32•212•34•6•Updated Sep 15, 2024Sep 15, 2024

• lta-analysis

  Public
  R

  •0•0•0•0•Updated Jul 28, 2024Jul 28, 2024

• ont_fb-inv_artifacts

  Public
  Method to estimate the rate of fold-back inversion artefacts in ONT sequencing data

  Python

  •0•1•0•0•Updated Jun 17, 2024Jun 17, 2024

• TelFusDetector

  Public
  Python

  •1•2•0•0•Updated Sep 27, 2023Sep 27, 2023

• telomere_fusions

  Public
  Code to call telomere fusions using DNA sequencing data

  R

  •0•4•0•0•Updated Aug 11, 2023Aug 11, 2023

• MMRd_immunogenicity

  Public
  Shell

  •0•1•0•0•Updated Aug 3, 2023Aug 3, 2023

• CancerGenomicsCourse_EMBL-EBI

  Public
  5•1•0•0•Updated Jul 25, 2023Jul 25, 2023

• R_utilities

  Public
  R common ggplot2 theme and popular colour palettes for lab usage

  R

  •

  MIT License

  •0•0•0•0•Updated May 15, 2023May 15, 2023