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    18 repositories

    • BakerLauerIsolatesPaper

      Public
      Figures and Data for the Isolates Paper
      R
      •1•0•0•0•Updated Dec 8, 2022Dec 8, 2022

    • Computational-boot-camp

      Public
      4•1•0•0•Updated Jul 19, 2022Jul 19, 2022

    • Sequencing_Analysis

      Public
      Analysis of 246 DNA extractions performed by Morgan Meade during the 2015-2016 academic year
      2•0•0•1•Updated Jan 11, 2022Jan 11, 2022

    • Dereplication-Letter-Code

      Public
      Code used in the generation of figures and dereplicated sets of genomes.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Jul 13, 2020Jul 13, 2020

    • Diversity_Productivity

      Public
      Microhabitats associate with bacterial biodiversity-ecosystem function relationships
      HTML
      •
      MIT License
      •1•0•0•0•Updated Mar 16, 2020Mar 16, 2020

    • HNA_LNA_productivity

      Public
      Investigate the bacterial composition of HNA and LNA groups and relate them to the productivity
      HTML
      •1•1•0•0•Updated May 22, 2019May 22, 2019

    • Verruco

      Public
      Standard ML
      •
      GNU General Public License v2.0
      •1•0•0•0•Updated May 12, 2018May 12, 2018

    • Mothur_oligo_batch

      Public
      Mothur batch analysis scripts
      R
      •7•1•0•0•Updated Dec 5, 2017Dec 5, 2017

    • EnvMicro_Props2017

      Public
      HTML
      •2•1•0•0•Updated Oct 13, 2017Oct 13, 2017

    • IDM_Experiments

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 8, 2017May 8, 2017

    • microcystis-oligotypes

      Public
      Analysis for Berry et al. (2017) "Are oligotypes meaningful ecological and phylogenetic units? A case study of Microcystis in freshwater lakes"
      HTML
      •0•0•0•0•Updated Mar 2, 2017Mar 2, 2017

    • chab-microbial-ecology

      Public
      Code repository for Berry et al. (2017), "Cyanobacterial harmful algal blooms are a biological disturbance to western Lake Erie bacterial communities"
      HTML
      •3•6•0•0•Updated Jan 16, 2017Jan 16, 2017

    • MicrobeMiseq

      Public
      Set of useful functions and scripts for analyzing amplicon Miseq data.
      HTML
      •
      GNU General Public License v2.0
      •31•18•0•0•Updated Sep 27, 2016Sep 27, 2016

    • EMIRGE

      Public
      Set of scripts/guidelines for EMIRGE analysis of metagenomic data
      R
      •1•3•1•0•Updated Sep 22, 2016Sep 22, 2016

    • flux-tools

      Public
      Code and demos for running scripts on FLUX
      GNU General Public License v3.0
      •2•0•0•1•Updated Aug 23, 2016Aug 23, 2016

    • LM13_DNA

      Public
      R
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated May 19, 2016May 19, 2016

    • Frontiers2016Denef

      Public
      iTag analyses for cDNA and DNA data generated from samples for 2013 Lake Michigan cruises
      R
      •
      GNU General Public License v2.0
      •1•0•0•0•Updated Apr 14, 2016Apr 14, 2016

    • Final_PAFL_Trophicstate

      Public
      This is the repository for the manuscript "Phylogenetic conservation of freshwater lake habitat preference varies between abundant bacterioplankton phyla" writt…
      HTML
      •
      MIT License
      •2•2•0•0•Updated Dec 8, 2015Dec 8, 2015
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