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    77 repositories

    • autotunex

      Public
      Python
      •0•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • mdsscope

      Public
      Tools to explore Minimum Decycling Sets (MDSs) of the de Bruijn graph
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•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•3•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-genesnon-fusion-genes
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •23•42•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