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  • UTokyo

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  • bits Public

    BITS: miscellaneous BioInformatics ToolS

    python bioinformatics
    Python 2 MIT License Updated Sep 25, 2024

  • install-scripts Public

    Personal collection of scripts for installing Lmod modules

    Shell 3 Updated Sep 17, 2024

  • plotly_light Public

    A python Plotly wrapper aiming for lightweight plots

    Python MIT License Updated Sep 5, 2024

  • gepard Public

    Forked from univieCUBE/gepard

    Genome Pair Rapid Dotter

    Java 1 MIT License Updated Mar 1, 2024

  • ClassPro Public

    A K-mer classifier for HiFi reads

    C 8 GNU General Public License v3.0 Updated Jan 29, 2024

  • make_telomere_bed Public

    Make a .bed file for telomeres in a contig/scaffold file

    Python Updated Jan 25, 2024

  • ant-asm-workflow Public

    Genome assembly workflow with HiFi Omni-C

    Shell 1 1 Updated Jan 4, 2024

  • jtk Public

    Forked from ban-m/jtk

    JTK -- a targeted diploid genome assembler

    Rust MIT License Updated Jul 6, 2023

  • PaperSorter Public

    A proof-of-concept paper management application with Electron React Redux

    electron react-redux pdf-management
    JavaScript MIT License Updated Mar 8, 2023

  • DAVIEWER Public

    DAVIEWER for compatibility with Qt6

    C 1 Other Updated Jan 10, 2023

  • FASTK_tools Public

    Developmental codes for ClassPro

    C MIT License Updated Dec 31, 2022

  • FASTK_python Public

    Python interface for FASTK (currently Histex and Profex)

    C MIT License Updated Nov 16, 2022

  • kmer-profile Public

    Scripts for kmer profile analysis

    Python 2 Updated Aug 10, 2022

  • snakeproc Public

    Procedural Snakemake: An experimental template usage of snakemake for more intuitive workflows

    Shell Updated Aug 9, 2022

  • ntHash Public

    Forked from bcgsc/ntHash

    Fast hash function for DNA sequences

    C MIT License Updated Jul 13, 2022

  • purge_tips_smk Public

    Snakemake version of purge_tips

    Python Updated Dec 24, 2021

  • purge_tips Public

    Remove reads mapped to low-cov contigs (deemed contamination, etc.) using a GFA file

    Shell MIT License Updated Dec 17, 2021

  • my-dipasm Public

    Custom DipAsm

    Shell Updated Nov 5, 2021

  • BioinfoUgrp Public

    Forked from oist/BioinfoUgrp

    OIST Bioinfo user group

    Shell Updated Sep 2, 2021

  • complex-sat-asm Public

    Complex Satellite Sequence Assembly with PacBio HiFi reads

    bioinformatics python3 genome-assembly
    Python 1 Updated Apr 9, 2021

  • DAMASKER Public

    Forked from https://github.com/thegenemyers/DAMASKER

    C Updated Apr 9, 2021

  • canu Public

    Forked from marbl/canu

    A single molecule sequence assembler for genomes large and small.

    C Updated Feb 19, 2021

  • sdust Public

    Forked from lh3/sdust

    Symmetric DUST for finding low-complexity regions in DNA sequences

    C Updated Dec 22, 2020

  • CentromereAssembly Public

    [Obsolete] Trying to assemble centromere sequences (of Drosophila for now; hopefully any species in the future)

    python bioinformatics genome-assembly
    Python 1 MIT License Updated May 2, 2020

  • pb_metagenome Public

    Codes for PacBio metagenome analyses

    Python MIT License Updated Jan 22, 2019

  • ContigChecker Public

    A tool for checking circularity and correctness of contigs

    Python 1 Updated Dec 19, 2018

  • pbcore Public

    pbcore for python3. Forked from https://github.com/PacificBiosciences/pbcore

    Python Updated Jul 4, 2018

  • Falcon2Fastg Public

    Tidied Falcon2Fastg (https://github.com/md5sam/Falcon2Fastg) for python3

    Python MIT License Updated Jun 29, 2018

  • PaperMapVue Public

    PaperMap with Vue.js

    JavaScript Updated Apr 18, 2018

  • PaperMap Public

    Graphical Application for Paper Survey Management

    JavaScript Updated Apr 12, 2018