Repositories list

• xr-ds-seq-snakemake

  Public
  This repository contains xr-seq and damage-seq pipelines.

  Python

  •

  MIT License

  •0•4•0•0•Updated Jan 21, 2026Jan 21, 2026

• PHACE

  Public
  Phylogeny-aware co-evolution

  R

  •

  MIT License

  •2•10•0•0•Updated Jan 11, 2026Jan 11, 2026

• XR-DS-seq-Tutorial

  Public
  GitHub repository tutorial for XR-Seq and Damage-Seq methodologies, providing code examples, datasets, and documentation for studying DNA damage and repair processes.

  Python

  •

  MIT License

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

• GPCR_Family_Divergence

  Public
  HTML

  •

  MIT License

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

• B2AR_Dimer_Interface

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 23, 2025Nov 23, 2025

• GPCRevolution

  Public
  HTML

  •0•0•0•0•Updated Oct 9, 2025Oct 9, 2025

• worm-UV-DR

  Public
  Worm (C. elegans) UV-induced DNA Damage and Repair

  Python

  •0•0•0•0•Updated Sep 19, 2025Sep 19, 2025

• brendo

  Public
  CSS

  •

  MIT License

  •0•0•0•0•Updated Aug 12, 2025Aug 12, 2025

• PHACTboost

  Public
  R

  •2•6•0•0•Updated Jul 19, 2025Jul 19, 2025

• uv-3d-ddr

  Public
  Genome architecture analysis, dataset generation, and GNN training/inference from the study 'UV-induced reorganization of 3D genome mediates DNA damage response'.

  Jupyter Notebook

  •

  MIT License

  •2•2•0•0•Updated Dec 6, 2024Dec 6, 2024

• genome-integrity

  Public
  SCSS

  •

  Other

  •0•0•0•0•Updated Sep 4, 2024Sep 4, 2024

• WGSpipe

  Public
  Nextflow

  •1•0•0•0•Updated Sep 2, 2024Sep 2, 2024

• fzd7_evolution_and_structure

  Public
  Python

  •0•0•0•0•Updated Aug 2, 2024Aug 2, 2024

• CaSR

  Public
  Python

  •1•0•0•0•Updated Jul 28, 2024Jul 28, 2024

• PHACTboost_manuscript

  Public
  R

  •0•3•0•0•Updated Jul 3, 2024Jul 3, 2024

• Phyloseek

  Public
  Python

  •0•0•0•0•Updated May 2, 2024May 2, 2024

• PHYLM

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Apr 30, 2024Apr 30, 2024

• PHACT

  Public
  This is a phylogeny workflow for batch submission to HPC cluster built with Slurm queue manager

  R

  •6•9•0•0•Updated Mar 19, 2024Mar 19, 2024

• XPA_evolution

  Public
  Python

  •0•0•0•0•Updated Oct 12, 2023Oct 12, 2023

• atmm

  Public
  Python

  •0•2•0•0•Updated Jul 30, 2023Jul 30, 2023

• missense_atlas

  Public
  Missense Atlas

  JavaScript

  •0•3•0•0•Updated Jun 19, 2023Jun 19, 2023

• phylostat

  Public
  JavaScript

  •

  MIT License

  •0•0•0•9•Updated Mar 23, 2023Mar 23, 2023

• boquila

  Public
  NGS read simulator to eliminate read nucleotide bias in sequence analysis.

  Rust

  •

  MIT License

  •0•6•0•0•Updated Mar 19, 2023Mar 19, 2023

• 3D-UV

  Public
  Python

  •0•0•0•0•Updated Mar 3, 2023Mar 3, 2023

• mdd-analysis

  Public
  HTML

  •0•0•0•0•Updated Dec 26, 2022Dec 26, 2022

• MycoSmegmatis_TRCF

  Public
  The Mfd Protein is the Transcription-Repair Coupling Factor (TRCF) in Mycobacterium Smegmatis

  Python

  •

  MIT License

  •1•1•0•0•Updated Dec 20, 2022Dec 20, 2022

• replicationRepair

  Public
  R

  •

  MIT License

  •0•0•0•0•Updated Sep 17, 2022Sep 17, 2022

• GPCR-coupling-selectivity

  Public
  Python

  •0•0•0•0•Updated Mar 15, 2022Mar 15, 2022

• 2022-01-15-SC-Sabanci-Turkey

  Public
  Data Carpentries Workshop

  HTML

  •

  Other

  •0•0•0•0•Updated Dec 17, 2021Dec 17, 2021

• lemur-manu

  Public
  HTML

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  Other

  •0•0•0•0•Updated Jun 11, 2021Jun 11, 2021