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@neufeld Dr. Josh Neufeld's Lab

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    12 repositories

    • AOA-genomics

      Public
      Calvin Cornell scripts for assessing genome-encoded metabolic potential of ammonia-oxidizing archaea
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 15, 2024Jul 15, 2024

    • AXIOME2

      Public
      Automation, eXtension, and Integration of Microbial Ecology
      Python
      •
      Other
      •4•0•4•1•Updated Feb 22, 2024Feb 22, 2024

    • AXIOME3-GUI

      Public
      AXIOME3 Full Stack Project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•7•13•Updated Aug 22, 2023Aug 22, 2023

    • AXIOME3

      Public
      Automated QIIME 2 Workflow wrapped in Luigi Framework currently in early development
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•8•1•0•Updated Apr 17, 2022Apr 17, 2022

    • pandaseq

      Public
      PAired-eND Assembler for DNA sequences
      C
      •
      GNU General Public License v3.0
      •24•129•4•0•Updated Dec 21, 2020Dec 21, 2020

    • lab-server-training

      Public
      Server training for the Neufeld lab
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Sep 22, 2020Sep 22, 2020

    • SSUnique

      Public
      SSUnique is a software tool designed to process unclassified and/ or rare fractions of SSU rRNA gene sequence libraries. Specifically, SSUnique generates a network- based visualization of taxonomic assignments then extracts unclassified and/or rare sequence groups, filtering these groups for phylogenetic novelty.
      R
      •1•6•0•0•Updated Nov 19, 2016Nov 19, 2016

    • pandaseq-sam

      Public
      PAired-eND Assembler for DNA sequences – SAM/BAM format support
      C
      •
      GNU General Public License v3.0
      •1•2•0•0•Updated Jul 25, 2016Jul 25, 2016

    • MESaS

      Public
      Microbial Ecology Scripts and Stuff
      R
      •
      MIT License
      •1•1•0•0•Updated May 22, 2015May 22, 2015

    • AXIOME

      Public
      AXIOME - Automation, Extension, and Integration Of Microbial Ecology: Helper tools to make managing numerical ecology pipelines easier
      Vala
      •
      GNU General Public License v3.0
      •3•13•4•0•Updated Jun 20, 2014Jun 20, 2014

    • axiometic

      Public
      A GUI companion for AXIOME
      Python
      •0•3•0•0•Updated Nov 13, 2012Nov 13, 2012

    • neufeld.github.com

      Public
      Pages repository for Neufeld lab
      JavaScript
      •0•1•0•0•Updated Jul 20, 2012Jul 20, 2012