Repositories list

• mdsscope

  Public
  Tools to explore Minimum Decycling Sets (MDSs) of the de Bruijn graph

  C++

  •

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

  •0•5•0•0•Updated Oct 1, 2024Oct 1, 2024

• glitter

  Public
  Go

  •0•0•0•0•Updated Jun 8, 2024Jun 8, 2024

• mrngb

  Public
  Python

  •0•0•0•0•Updated Mar 11, 2024Mar 11, 2024

• graphhic

  Public
  Python

  •

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

  •1•3•0•0•Updated Feb 18, 2024Feb 18, 2024

• autoparadvisor

  Public
  Python

  •

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

  •3•0•0•0•Updated Feb 12, 2024Feb 12, 2024

• vsbo

  Public
  Python

  •

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

  •1•5•0•1•Updated Feb 12, 2024Feb 12, 2024

• omhismb2019

  Public
  C++

  •8•23•2•0•Updated Dec 4, 2023Dec 4, 2023

• maskedminimizer

  Public
  Python

  •

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

  •0•0•0•0•Updated Jun 27, 2023Jun 27, 2023

• maskminimizer

  Public
  Python

  •0•0•0•0•Updated Jun 27, 2023Jun 27, 2023

• gtednewilp

  Public
  ILP solutions for computing Graph Traversal Edit Distance

  Jupyter Notebook

  •

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

  •2•1•0•0•Updated May 17, 2023May 17, 2023

• rlforlqh

  Public
  Python

  •0•0•0•0•Updated May 10, 2023May 10, 2023

• rlliquidhandler

  Public
  Jupyter Notebook

  •0•1•0•0•Updated May 10, 2023May 10, 2023

• turnpikesolvermm

  Public
  Python

  •

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

  •0•0•0•0•Updated May 9, 2023May 9, 2023

• maskedmnz

  Public
  0•0•0•0•Updated Jan 20, 2023Jan 20, 2023

• maskedminimizerismb23

  Public
  0•1•0•0•Updated Jan 18, 2023Jan 18, 2023

• minhhoangthesisproposal

  Public
  0•0•0•0•Updated Jan 4, 2023Jan 4, 2023

• dlerrorcorrectrna

  Public
  Python

  •

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

  •0•0•0•0•Updated Aug 21, 2022Aug 21, 2022

• biblint

  Public
  BibLint -- a system for fixing bibtex databases

  Go

  •

  Other

  •3•21•7•0•Updated Jun 2, 2022Jun 2, 2022

• gtedemedtest

  Public
  Jupyter Notebook

  •0•1•0•0•Updated Apr 26, 2022Apr 26, 2022

• squid

  Public
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data

  rna-seqstructural-variationfusion-genes+ 1non-fusion-genes

  C++

  •

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

  •22•40•21•0•Updated Apr 7, 2022Apr 7, 2022

• libgff

  Public
  A simple GFF/GTF parsing library in C++

  3•9•1•1•Updated Dec 28, 2021Dec 28, 2021

• rnaseqtools

  Public
  toolkit to process gtf files

  C++

  •

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

  •3•16•3•0•Updated Dec 24, 2021Dec 24, 2021

• subgraphquantanalysis

  Public
  Python

  •0•0•0•0•Updated Dec 16, 2021Dec 16, 2021

• deepminimizer

  Public
  Python

  •0•0•0•0•Updated Dec 10, 2021Dec 10, 2021

• fedpnas

  Public
  0•0•0•0•Updated Nov 8, 2021Nov 8, 2021

• variantstore

  Public
  VariantStore: A Large-Scale Genomic Variant Search Index

  C++

  •

  BSD 2-Clause "Simplified" License

  •5•39•3•0•Updated Jul 9, 2021Jul 9, 2021

• CAS_code

  Public
  C++

  •1•3•0•0•Updated Jun 28, 2021Jun 28, 2021

• rlzgraph

  Public
  Create genome graph structures via RLZ compression.

  genomegraphs

  C++

  •

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

  •1•8•0•0•Updated Jun 24, 2021Jun 24, 2021

• frankentad

  Public
  Code for the manuscript "Capturing the complexity of topologically associating domains through multi-feature optimization", Natalie Sauerwald and Carl Kingsford.

  Go

  •0•2•0•0•Updated May 14, 2021May 14, 2021

• scallop

  Public
  Scallop is a reference-based transcriptome assembler for RNA-seq

  C++

  •

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

  •18•88•12•0•Updated Apr 30, 2021Apr 30, 2021