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@beiko-lab

Dr. Beiko's Lab

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  1. gengis gengis Public

    GenGIS (pronounced 'Genghis' like Genghis Khan) is a bioinformatics application that allows users to combine digital map data with information about biological sequences collected from the environm…

    C++ 27 13

  2. mimb_16S mimb_16S Public

    Repository containing scripts and files for 16S gene community analysis chapter in Methods in Molecular Biology

    Shell 26 10

  3. arete arete Public

    AMR/VF LGT focused bacterial genomics analysis workflow

    Python 24 7

  4. ananke ananke Public

    Ananke: Clustering marker gene data by time-series patterns

    Python 9 2

  5. AMRtime AMRtime Public

    Tool to predict the presence of antimicrobial resistance in clinical metagenomes

    Python 8 2

  6. MEGASAT MEGASAT Public

    High-throughput analysis of targeted microsatellite sequences.

    Perl 5 3

Repositories

Showing 10 of 34 repositories
  • amr_name_datasets Public

    Scripts and supplementary files for Beiko et al., "Inconsistent naming of carbapenemase1 and colistin-resistance genes"

    beiko-lab/amr_name_datasets’s past year of commit activity
    0 MIT 0 0 0 Updated Dec 19, 2024
  • evolCCM Public

    R package for CCM (Community Coevolution Model)

    beiko-lab/evolCCM’s past year of commit activity
    R 0 GPL-3.0 0 0 0 Updated Oct 28, 2024
  • sarand Public

    To extract AMR genes and their neighborhood

    beiko-lab/sarand’s past year of commit activity
    Python 3 GPL-3.0 5 1 0 Updated Sep 15, 2024
  • arete Public

    AMR/VF LGT focused bacterial genomics analysis workflow

    beiko-lab/arete’s past year of commit activity
    Python 24 MIT 7 3 0 Updated Aug 8, 2024
  • ARETE-page Public

    Static website for ARETE project information

    beiko-lab/ARETE-page’s past year of commit activity
    HTML 0 Apache-2.0 0 0 0 Updated Mar 5, 2024
  • Indizio Public

    A visual analytics tool to investigate correlated data structures using heatmaps, networks, and network statistics.

    beiko-lab/Indizio’s past year of commit activity
    Python 0 MIT 2 5 1 Updated Nov 9, 2023
  • sarandV0 Public
    beiko-lab/sarandV0’s past year of commit activity
    Python 0 GPL-3.0 0 2 0 Updated Aug 31, 2023
  • AMRtime Public

    Tool to predict the presence of antimicrobial resistance in clinical metagenomes

    beiko-lab/AMRtime’s past year of commit activity
    Python 8 MIT 2 2 0 Updated May 19, 2023
  • CBW2021_Module2_16S_Analysis Public
    beiko-lab/CBW2021_Module2_16S_Analysis’s past year of commit activity
    Shell 2 5 0 0 Updated Dec 5, 2022
  • DNA_encoders Public
    beiko-lab/DNA_encoders’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Oct 12, 2022
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