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@appliedbinf Applied Bioinformatics Laboratory

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    21 repositories

    • pima

      Public
      Plasmid and antimicrobial resistance pipeline
      Python
      •3•16•2•1•Updated Dec 21, 2024Dec 21, 2024

    • el_gato

      Public
      Python
      •
      MIT License
      •1•10•0•0•Updated Dec 17, 2024Dec 17, 2024

    • CAMPneu

      Public
      Comprehensive Analysis of Mycoplasma Pneumoniae
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Dec 10, 2024Dec 10, 2024

    • pima-docker2

      Public
      Volume based Pima Docker
      Python
      •0•0•0•0•Updated Nov 23, 2023Nov 23, 2023

    • pima-docker

      Public
      Seperating the Docker Installation and codebase from the core pima codebase. This way the latest version is always created with the latest docker
      Python
      •1•3•0•0•Updated Nov 13, 2023Nov 13, 2023

    • c19r-app

      Public
      R
      •
      Other
      •1•0•0•0•Updated May 8, 2023May 8, 2023

    • c19rdata

      Public
      R
      •1•0•2•0•Updated Mar 17, 2023Mar 17, 2023

    • hope

      Public
      Assessment of homopolymer performance of ONT sequencing
      Rust
      •0•0•0•0•Updated Jan 6, 2023Jan 6, 2023

    • pima_md

      Public
      This implementation of PIMA uses Markdown instead of tectonic. Operation is largely the same though the packages used slightly different.
      Python
      •2•0•0•0•Updated Dec 28, 2022Dec 28, 2022

    • covid19-event-risk-planner

      Public
      COVID19 risk planner R-Shiny application
      bioinformaticsshinymodelingrstatsshiny-appsshiny-rcovid-19covid19daily-data
      R
      •
      Other
      •22•47•0•0•Updated Aug 6, 2022Aug 6, 2022

    • mycetomatis_analysis_workflow

      Public
      Collection of scripts describing how Mycetomatis datasets were processed
      Perl
      •
      Apache License 2.0
      •0•0•0•0•Updated Jul 27, 2022Jul 27, 2022

    • 2021-QBiosWorkshop

      Public
      R shiny examples for QBios Workshop May 2021
      4•4•0•0•Updated May 18, 2021May 18, 2021

    • URDO-CANDy

      Public
      CANDy, the Custom AmplicoN Database tool, allows users to create custom BLAST databases using amplicons created with in silico PCR
      Python
      •
      Apache License 2.0
      •1•0•4•0•Updated May 6, 2021May 6, 2021

    • GaTech-Weitz-SheildImmunity-FrontEnd

      Public
      Bootstrap frontend for shieldimmunity.org
      CSS
      •0•0•0•0•Updated Mar 10, 2021Mar 10, 2021

    • GaTech-Weitz-ShieldImmunity

      Public
      Weitz Sheild Immunity dashboard components
      R
      •2•1•1•0•Updated Mar 10, 2021Mar 10, 2021

    • CovidOnCampus-API-Bridge

      Public
      Serverless API bridge
      Python
      •
      MIT License
      •1•1•0•0•Updated Jun 12, 2020Jun 12, 2020

    • covid_shield_immunity

      Public
      Modeling the Role of ‘Shield Immunity’ in Reducing COVID-19 Epidemic Spread
      Jupyter Notebook
      •
      Other
      •7•0•0•0•Updated May 5, 2020May 5, 2020

    • MAGEmodel_covid19_GA

      Public
      Metapopulation AGe-structured Epidemiological (MAGE) model for COVID-19 in Georgia
      Jupyter Notebook
      •
      MIT License
      •5•0•0•0•Updated Apr 29, 2020Apr 29, 2020

    • URDO-SMOREd

      Public
      Sequence Matching fOr REpiratory Diseases, SMORE'D, is a command-line sequence classification tool tailored to meet the needs of the Undiagnosed Respiratory Disease Outbreak (URDO) branch at CDC. SMORE'D is a k-mer based classification tool capable of rapidly classifying read sequences generated by multi-pathogen detection platforms.
      bioinformaticsgenomicsngspublic-healthmicrobial-genomicsbacteriataxonomy-assignmentngs-analysispathogen-detection
      Python
      •
      Other
      •1•1•1•0•Updated Mar 24, 2020Mar 24, 2020

    • constructor

      Public
      tool for creating installers from conda packages
      Python
      •
      Other
      •168•0•0•0•Updated Feb 5, 2020Feb 5, 2020

    • genecaller

      Public
      A stringMLST-based approach to gene calling and annotation
      bioinformaticsannotationapplied-bioinformatics-lab
      Python
      •1•0•0•0•Updated Mar 29, 2018Mar 29, 2018