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@combogenomics Combo

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    Repositories list

    24 repositories

    • MeStudio

      Public
      A computational tool for extracting and analyzing methylation features from SMRT reads
      C
      •1•8•4•0•Updated Jan 11, 2024Jan 11, 2024

    • Squid

      Public
      C
      •2•2•0•0•Updated Jan 8, 2024Jan 8, 2024

    • CONTIGuator

      Public
      Bacterial genomes finishing tool for structural insights on draft genomes
      Python
      •
      GNU General Public License v3.0
      •6•23•0•0•Updated Sep 22, 2023Sep 22, 2023

    • medusa2

      Public
      medusa2
      Python
      •0•2•0•0•Updated Jun 15, 2023Jun 15, 2023

    • medusa2-webapp

      Public
      Medusa2 web server
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 28, 2023Mar 28, 2023

    • scripts_for_the_people

      Public
      Commonly used scripts for basic computational biology tasks
      Python
      •0•2•0•0•Updated Mar 9, 2023Mar 9, 2023

    • MetRob015

      Public
      Raw data and code related to the manuscript "Metabolic robustness to growth temperature of cold adapted bacterium"
      R
      •0•0•0•0•Updated Sep 23, 2022Sep 23, 2022

    • DuctApe

      Public
      Analyze and link genomics and phenomics experiments
      Python
      •
      Other
      •4•10•8•0•Updated Jul 18, 2022Jul 18, 2022

    • MicrobialLoop

      Public
      Codes for the modelling of P. tricornutum and P. haloplanktis co-culture
      MATLAB
      •0•0•0•0•Updated Mar 22, 2021Mar 22, 2021

    • SyntheticMicrobialLoop

      Public
      MATLAB
      •0•0•0•0•Updated Mar 12, 2021Mar 12, 2021

    • medusa

      Public
      A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.
      Java
      •
      GNU General Public License v3.0
      •15•47•8•0•Updated Feb 17, 2021Feb 17, 2021

    • PhTAC125_metabolic_reconstruction

      Public
      Metabolic reconstruction and modelling for the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125
      MATLAB
      •0•0•0•0•Updated Sep 14, 2020Sep 14, 2020

    • bbh

      Public
      A script for running bidirectional best orthologs identification method
      Perl
      •0•0•0•0•Updated Sep 9, 2020Sep 9, 2020

    • contiguator-webapp

      Public
      CONTIGuator web server
      Python
      •
      MIT License
      •2•2•0•0•Updated Mar 20, 2019Mar 20, 2019

    • medusa-webapp

      Public
      Medusa web server
      Python
      •
      MIT License
      •2•1•0•0•Updated Jan 19, 2018Jan 19, 2018

    • BeamerTheme

      Public
      TeX
      •0•1•0•0•Updated Nov 23, 2015Nov 23, 2015

    • regtools

      Public
      Scripts and libraries to perform motif searches inside genomes
      Python
      •2•1•0•0•Updated Aug 28, 2015Aug 28, 2015

    • rhizoreg

      Public
      Data for the analysis on the Sinothizobium meliloti regulatory network
      0•0•0•0•Updated Aug 28, 2015Aug 28, 2015

    • snippets

      Public
      Various snippets or random scripts
      Python
      •0•1•0•0•Updated Jul 23, 2015Jul 23, 2015

    • medusa_datasets

      Public
      A series of benchmarks for the Medusa scaffolder https://github.com/combogenomics/medusa
      0•0•0•0•Updated Jan 28, 2015Jan 28, 2015

    • TarSeeker

      Public
      Recursive seeker for tar archives. It supports bz2 and gzip compression formats.
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 19, 2015Jan 19, 2015

    • ductape_data

      Public
      Reproducible analysis on the genome/phenome of four bacterial datasets
      Python
      •0•1•0•0•Updated Apr 6, 2014Apr 6, 2014

    • ductape_vs_opm

      Public
      A reproducible comparison between the opm package and the DuctApe suite.
      Python
      •0•1•0•0•Updated Nov 6, 2013Nov 6, 2013

    • DeUniFier

      Public
      Java
      •0•1•0•0•Updated Sep 20, 2013Sep 20, 2013
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