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    44 repositories

    • VMR_backend_scripts

      Public archive
      Python
      •2•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • ont-nextflow

      Public
      Nextflow
      •1•0•0•2•Updated Apr 12, 2023Apr 12, 2023

    • prairiedog

      Public
      next-gen pangenome graphs for predictive genomics
      amrgraph-convolutional-networkssalmonella
      Python
      •
      Other
      •0•0•25•2•Updated Dec 26, 2022Dec 26, 2022

    • grouch

      Public
      Front-end for superphy/spfy. Support submission of analysis tasks
      material-designgenomicspredictive
      JavaScript
      •
      Apache License 2.0
      •1•0•14•25•Updated Dec 9, 2022Dec 9, 2022

    • acheron

      Public
      Machine learning platform for bacterial genome sequence analysis
      Python
      •
      Apache License 2.0
      •2•1•0•0•Updated Dec 24, 2021Dec 24, 2021

    • AMR_Predictor

      Public
      Machine learning methods to predict the anti-microbial resistance of Salmonella.
      genomeamrsalmonellaamr-predictor
      Python
      •1•3•0•0•Updated Aug 14, 2020Aug 14, 2020

    • kmer

      Public
      Using machine learning to predict E. coli phenotypes
      ecoliphenotype-prediction
      TeX
      •2•1•0•0•Updated Jan 24, 2020Jan 24, 2020

    • Brucella

      Public
      Python
      •1•0•0•0•Updated Dec 30, 2019Dec 30, 2019

    • Brucella_Pipeline

      Public archive
      A pipeline for the identification of unique nucleotide markes across species of Brucella
      Python
      •1•0•0•0•Updated Dec 13, 2019Dec 13, 2019

    • Brucella_Project_Preliminary

      Public
      Python
      •0•0•0•0•Updated Dec 10, 2019Dec 10, 2019

    • fasta_cleaner

      Public
      For cleaning fasta files
      Python
      •0•0•0•0•Updated Oct 22, 2019Oct 22, 2019

    • ashlynn-prop

      Public
      1•0•0•0•Updated Oct 15, 2019Oct 15, 2019

    • docker-tox-base

      Public
      Docker base image for running tox with Python 2.6, 2.7, 3.3, 3.4, 3.5, 3.6, 3.7, PyPy, and PyPy3.
      Dockerfile
      •
      MIT License
      •13•0•0•0•Updated Aug 14, 2019Aug 14, 2019

    • gobin

      Public
      0•0•0•0•Updated Aug 7, 2019Aug 7, 2019

    • prairiedog_go

      Public
      probability emitting pangenome graphs
      graphvariantsreference-genomepan-genome
      Go
      •
      Apache License 2.0
      •0•0•9•0•Updated Aug 2, 2019Aug 2, 2019

    • dgraph

      Public
      Fast, Distributed Graph DB
      Go
      •
      Other
      •1.5k•0•0•0•Updated Jul 17, 2019Jul 17, 2019

    • lemongraph

      Public
      Log-based transactional graph engine
      Python
      •
      Other
      •150•0•0•0•Updated Jun 28, 2019Jun 28, 2019

    • diffpool

      Public
      Python
      •
      MIT License
      •136•0•0•0•Updated Jun 4, 2019Jun 4, 2019

    • Pans_Labyrinth

      Public
      Python
      •0•0•0•0•Updated Apr 26, 2019Apr 26, 2019

    • dockerfile-wizard

      Public
      Use CircleCI to build custom Docker images with combinations of common languages/dependencies
      Perl
      •540•0•0•0•Updated Feb 27, 2019Feb 27, 2019

    • Proposal

      Public
      0•0•0•0•Updated Oct 15, 2018Oct 15, 2018

    • phenores

      Public
      Predicting bacterial AMR phenotypes from genotypes
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Oct 5, 2018Oct 5, 2018

    • spfy

      Public
      Spfy: an integrated graph database for real-time prediction of Escherichia coli phenotypes and downstream comparative analyses
      dockerspaweb-appgenome-annotationpredictive-analyticsblazegraphrq
      Python
      •
      Apache License 2.0
      •2•4•34•1•Updated Sep 14, 2018Sep 14, 2018

    • manuamr

      Public
      Paper for MIC prediction in Salmonella
      Apache License 2.0
      •0•0•0•0•Updated Aug 10, 2018Aug 10, 2018

    • paper_platform

      Public
      Paper describing the platform architecture / functionality for the semantic web
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•5•0•Updated Aug 3, 2018Aug 3, 2018

    • host_predict

      Public
      Python
      •0•0•0•0•Updated Jul 26, 2018Jul 26, 2018

    • docker-flask-conda

      Public
      Fork adds support for Conda
      dockernginxflaskproductioncondauwsgi
      Python
      •
      Apache License 2.0
      •608•2•0•1•Updated Jun 8, 2018Jun 8, 2018

    • docker-blazegraph

      Public
      Run Blazegraph in Docker
      dockerblazegraph
      Shell
      •17•0•0•0•Updated May 23, 2018May 23, 2018

    • ecoliHostPredictor

      Public
      Uses machine learning to predict the host given an ecoli genome
      Python
      •0•1•0•0•Updated May 10, 2018May 10, 2018

    • sequann

      Public
      Link and store annotations like Blast, Resfams, RGI to genome sequences for quick lookup
      Python
      •0•0•0•0•Updated Apr 25, 2018Apr 25, 2018