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    16 repositories

    • Wild_Worm_Codon_Adapter

      Public
      Shiny Web app for automatic codon optimization based on codon usage in Strongyloides species, Pristionchus species, Brugia malayi, as well as user-provided custom codon lookup tables
      intronstrongyloidescodon-optimizationcodon-biascodon-adaptation
      R
      •
      MIT License
      •0•3•0•0•Updated Aug 1, 2025Aug 1, 2025

    • Patel_et_al_2025

      Public
      Repository for the manuscript, "Dopamine signaling drives skin invasion by human-infective nematodes," by Ruhi Patel, Gloria Bartolo, Michelle L. Castelletto, Aracely Garcia Romero, Astra S. Bryant, George W. Agak, and Elissa A. Hallem.
      0•0•0•0•Updated Jul 30, 2025Jul 30, 2025

    • Abell_et_al_2025

      Public
      Repository for the manuscript, "
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated May 19, 2025May 19, 2025

    • Strongyloides_RNAseq_Browser

      Public
      Shiny Web App for Browsing/Analysis of publicly available Strongyloides RNAseq datasets
      R
      •
      MIT License
      •0•1•2•0•Updated Apr 9, 2025Apr 9, 2025

    • Parasite_Genome_Annotations

      Public
      Community annotations for parasite genomes
      R
      •
      MIT License
      •0•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • Banerjee-et-al-2025

      Public
      All data accompanying the manuscript, "Carbon dioxide shapes parasite-host interactions in a human-infective nematode."
      0•0•0•0•Updated Dec 13, 2024Dec 13, 2024

    • Bryant_et_al_2021

      Public
      Data and code associated with the Hallem Lab manuscript titled "The neural basis of heat seeking in a human-infective parasitic worm."
      HTML
      •
      Other
      •0•0•0•0•Updated Mar 25, 2024Mar 25, 2024

    • Banerjee_et_al_2023

      Public
      All raw data that support the findings of the manuscript "Distinct neural circuits establish similar chemosensory behaviors across life stages in C. elegans".
      0•0•0•0•Updated Apr 18, 2023Apr 18, 2023

    • Miscellaneous

      Public
      Miscellaneous code for the Hallem Lab
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Aug 13, 2022Aug 13, 2022

    • Bryant-DeMarco-Hallem-2021

      Public
      Preprocessing and analysis files related to the Strongyloides RNAseq Browser
      HTML
      •
      MIT License
      •1•1•0•0•Updated Jul 11, 2022Jul 11, 2022

    • Labjack_Camera_Trigger

      Public
      Matlab functions for generating commands for the LabJack U3-LV
      M
      •0•0•0•0•Updated Feb 2, 2022Feb 2, 2022

    • Bryant-and-Hallem-2021

      Public
      Preprocessing and analysis files related to the Wild Worm Codon Adapter
      HTML
      •
      MIT License
      •0•1•0•0•Updated May 7, 2021May 7, 2021

    • Chavez_et_al_2021

      Public
      Code for Chavez et al 2021
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Dec 11, 2020Dec 11, 2020

    • FIJI_Scripts

      Public
      FIJI/ImageJ Scripts for post hoc processing of worm tracking image sequences
      Python
      •0•0•0•0•Updated May 13, 2020May 13, 2020

    • Chemotaxis_Tracker

      Public
      Hallem Lab Chemotaxis Tracking Codebase
      MATLAB
      •0•0•0•0•Updated May 13, 2020May 13, 2020

    • Thermotaxis_Tracker

      Public
      Thermotaxis Single Worm Tracking Codebase
      MATLAB
      •0•0•0•0•Updated May 13, 2020May 13, 2020