Repositories list

• cast-workflows

  Public
  Workflows used by the Center for Admixture Science and Technology

  Python

  •2•2•1•4•Updated Mar 5, 2025Mar 5, 2025

• panCT

  Public
  Our pangenome analysis toolkit

  Python

  •

  Other

  •0•1•1•3•Updated Mar 5, 2025Mar 5, 2025

• hla_haplotypes

  Public
  0•0•0•0•Updated Mar 4, 2025Mar 4, 2025

• haptools

  Public
  Ancestry and haplotype aware simulation of genotypes and phenotypes for complex trait analysis

  gwassimulation

  Python

  •

  MIT License

  •4•21•11•4•Updated Mar 2, 2025Mar 2, 2025

• pipsort

  Public
  C++

  •

  GNU Affero General Public License v3.0

  •0•4•0•0•Updated Feb 1, 2025Feb 1, 2025

• pangenome-api

  Public
  Python

  •0•0•0•0•Updated Jan 5, 2025Jan 5, 2025

• personal-genomics-textbook

  Public
  Textbook for CSE284: Personal Genomics

  Jupyter Notebook

  •

  MIT License

  •0•2•1•1•Updated Oct 27, 2024Oct 27, 2024

• CAST-genomics.github.io

  Public
  CAST website

  HTML

  •2•0•0•0•Updated Oct 24, 2024Oct 24, 2024

• snakemake-gfa-complexity

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jul 2, 2024Jul 2, 2024

• phewas

  Public
  Perform phewas for STRs and other variants

  Python

  •

  GNU General Public License v3.0

  •1•1•0•1•Updated Dec 12, 2023Dec 12, 2023

• HLA_Pipeline

  Public
  Python

  •0•0•0•0•Updated Nov 16, 2023Nov 16, 2023

• hla_typing

  Public
  HTML

  •

  MIT License

  •0•0•14•0•Updated May 19, 2023May 19, 2023

• haptools-prs-sim

  Public
  Using haptools to investigate factors affecting portability of PRSs

  Python

  •

  MIT License

  •0•1•0•1•Updated Mar 6, 2023Mar 6, 2023

• haptools-paper

  Public
  Analysis and results for the haptools manuscript

  Python

  •

  MIT License

  •0•0•0•0•Updated Feb 1, 2023Feb 1, 2023