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    15 repositories

    • Anacapa

      Public
      Written by Emily Curd (eecurd@g.ucla.edu), Jesse Gomer (jessegomer@gmail.com), Gaurav Kandlikar (gkandlikar@ucla.edu), Zack Gold (zjgold@ucla.edu), Max Ogden (max@maxogden.com), Lenore Pipes (lpipes@berkeley.edu)and Baochen Shi (biosbc@gmail.com). Assistance was provided by Rachel Meyer (rsmeyer@ucla.edu).
      bioinformaticsednametabarcodingsequence-analysistaxonomic-analysis
      Python
      •
      MIT License
      •19•1•0•2•Updated Jul 24, 2024Jul 24, 2024

    • t-rex-monitor

      Public
      T-REX job scheduler and metrics visualizer
      Shell
      •
      MIT License
      •0•0•0•0•Updated Feb 20, 2024Feb 20, 2024

    • crux

      Public
      Pipeline For Creating eDNA Reference Libraries
      Shell
      •8•0•4•0•Updated Feb 20, 2024Feb 20, 2024

    • taxid2taxonpath

      Public
      converts taxids to taxonpaths
      Python
      •2•0•0•0•Updated Jan 28, 2024Jan 28, 2024

    • caledna

      Public
      Rails app that handles the data management flow for CALeDNA.
      Ruby
      •
      MIT License
      •0•2•0•46•Updated Jan 19, 2023Jan 19, 2023

    • eDNA_Explorer

      Public
      Code repository for the ecoDASH project
      R
      •1•0•0•0•Updated Jul 11, 2022Jul 11, 2022

    • POUR

      Public
      plantsdnaanimalsfungibacteriaalgaebiodiversitymetabarcodingriverinvertebrates
      0•0•0•0•Updated Apr 30, 2021Apr 30, 2021

    • caledna-squarespace

      Public
      Files for the CALeDNA Squarespace site
      Less
      •0•1•0•0•Updated Nov 1, 2020Nov 1, 2020

    • trait-scripts

      Public
      assorted scripts related to species trait data
      Jupyter Notebook
      •1•0•0•0•Updated Oct 30, 2020Oct 30, 2020

    • TaxonListToOpenTreePhylogeny

      Public
      This is a Jupyter Notebook to make phylogenetic trees with the Open Tree of Life from a list of taxa such as those from Anacapa output (CALeDNA format)
      jupyter-notebookphylogeneticsedna
      Jupyter Notebook
      •2•0•0•0•Updated Jun 17, 2020Jun 17, 2020

    • eDNA-PCR-Project

      Public
      Raw and rarefied files for PCR Project
      1•0•0•0•Updated May 8, 2020May 8, 2020

    • eDNA-metadata

      Public
      Jupyter Notebook
      •2•1•0•0•Updated Apr 2, 2020Apr 2, 2020

    • ranacapa

      Public
      R package for downstream analysis for anacapa eDNA pipeline
      R
      •
      GNU General Public License v3.0
      •11•1•0•0•Updated Nov 8, 2019Nov 8, 2019

    • Klamath-mountains

      Public
      Klamath mountains genus interaction data repository compatible with globalbioticinteractions.org
      22•1•0•0•Updated Jul 3, 2019Jul 3, 2019

    • zeta-diversiy

      Public
      Analysis scripts using data from the CALeDNA consortium
      R
      •
      GNU General Public License v3.0
      •3•0•0•0•Updated May 20, 2019May 20, 2019