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    22 repositories

    • armbrustlab.github.io

      Public
      HTML
      •
      MIT License
      •5•2•0•0•Updated Nov 8, 2024Nov 8, 2024

    • NPac_euk_gene_catalog

      Public
      North Pacific eukaryotic metatranscriptome assemblies and annotations
      Shell
      •
      MIT License
      •0•1•0•0•Updated Oct 24, 2024Oct 24, 2024

    • marferret

      Public
      Code repository for collection, ingestion, and processing of genomic and transcriptomic sequence data into a reproducible reference sequence database
      Python
      •
      MIT License
      •0•2•0•0•Updated Feb 29, 2024Feb 29, 2024

    • seaflow-transfer

      Public
      SeaFlow data transfer tool
      Go
      •
      MIT License
      •0•1•1•2•Updated Mar 7, 2023Mar 7, 2023

    • Thaps_Catl

      Public
      R
      •0•0•0•0•Updated Jun 24, 2022Jun 24, 2022

    • trophic-mode-ml

      Public
      Accompanying code for 'The dynamic trophic architecture of open-ocean protist communities revealed through machine-guided metatranscriptomics.'
      HTML
      •
      MIT License
      •0•2•0•0•Updated Feb 18, 2022Feb 18, 2022

    • seaflow-realtime-deployment

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•2•0•0•Updated Sep 7, 2021Sep 7, 2021

    • cruisereplay

      Public
      Replay historical data feeds for a research cruise
      Go
      •
      MIT License
      •0•0•0•0•Updated Jul 13, 2021Jul 13, 2021

    • diel_eukaryotes

      Public
      Code repository for 'Diel-regulated transcriptional cascades of microbial eukaryotes in the North Pacific Subtropical Gyre'
      Shell
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 2, 2021Jul 2, 2021

    • gradients-amplicon

      Public
      Sharing is caring.
      R
      •0•0•0•0•Updated Aug 11, 2020Aug 11, 2020

    • manta

      Public
      Microbial Assemblage Normalized Transcript Analysis
      R
      •
      Other
      •0•0•0•0•Updated Dec 16, 2019Dec 16, 2019

    • moduledetection-evaluation

      Public
      Python
      •12•0•0•0•Updated Jul 18, 2019Jul 18, 2019

    • matrix_model_matlab

      Public
      Prepping SeaFlow data and using it in the Hunter-Cevera 2-population matrix growth model
      MATLAB
      •1•0•0•0•Updated Apr 5, 2019Apr 5, 2019

    • SEAStAR

      Public
      SEAStAR is a package of tools supporting the construction of complete analysis pipelines for next-generation (Illumina®, SOLiD™) sequencing data generated from environmental samples.
      C
      •
      GNU General Public License v3.0
      •2•13•1•0•Updated Feb 27, 2019Feb 27, 2019

    • seaflowviz3

      Public
      Web visualizations for SeaFlow data
      1•1•0•0•Updated Oct 2, 2018Oct 2, 2018

    • ssPopModel_respiration

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Aug 8, 2018Aug 8, 2018

    • global_thaps_clones

      Public
      TeX
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 12, 2018Jul 12, 2018

    • NWPac_amplicon

      Public
      Workup of 16S/18S data from three cruises in the NW Pacific
      Shell
      •
      MIT License
      •2•0•0•0•Updated May 30, 2018May 30, 2018

    • opedia

      Public
      HTML
      •6•0•0•0•Updated May 29, 2018May 29, 2018

    • clusterPop

      Public
      clusterPop is a R package that performs real-time clustering analysis and visualization of measured phytoplankton populations using a modified version of our software packge flowPhyto.
      R
      •
      MIT License
      •0•1•0•0•Updated Mar 27, 2018Mar 27, 2018

    • cytDiv

      Public
      cytoDiv is a R function that calculates ecological diversity indices for a microbial community based on its bio-optical properties measured at the single cell level by flow cytometry. The indices express the organization and structure of a community, its richness in physiological and genetic variations. The equations used to calculate the indice…
      reproducible-researchoceanographyseaflowflow-cytometry
      R
      •
      MIT License
      •2•2•0•1•Updated Mar 27, 2018Mar 27, 2018

    • seaflowviz2

      Public
      SeaFlow realtime data dashboard with Meteor
      JavaScript
      •0•3•0•0•Updated Aug 11, 2015Aug 11, 2015