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    • Public repository for RNAseq pipeline to be run on Aladdin platform
      Python
      MIT License
      0200Updated Dec 21, 2024Dec 21, 2024
    • Python
      MIT License
      2080Updated Dec 16, 2024Dec 16, 2024
    • VirSieve

      Public
      Run manager for the VirSieve Pipeline by Zymo Research
      Python
      2520Updated Dec 16, 2024Dec 16, 2024
    • Nextflow pipeline that calculates MIQ score. Compatible with Aladdin platform
      Nextflow
      GNU General Public License v3.0
      0100Updated Dec 12, 2024Dec 12, 2024
    • Repo for public-facing 16s miq score
      HTML
      GNU General Public License v3.0
      5862Updated Dec 6, 2024Dec 6, 2024
    • VEP functionality and called variant analysis for the VirSieve Pipeline by Zymo Research
      Python
      GNU General Public License v3.0
      1000Updated Dec 4, 2024Dec 4, 2024
    • GATK functionality for the VirSieve Pipeline by Zymo Research
      Python
      GNU General Public License v3.0
      1110Updated Dec 4, 2024Dec 4, 2024
    • Freyja portion of the virsieve pipeline
      Python
      1020Updated Dec 3, 2024Dec 3, 2024
    • Alignment and related functionality for the VirSieve Pipeline by Zymo Research
      Python
      GNU General Public License v3.0
      1010Updated Nov 27, 2024Nov 27, 2024
    • 0000Updated Oct 24, 2024Oct 24, 2024
    • Public repository for smRNAseq pipeline compatible with Aladdin platform
      Python
      MIT License
      0101Updated Sep 23, 2024Sep 23, 2024
    • Processing pipeline for Shotgun data of the Integrated Omics Team
      Nextflow
      MIT License
      2010Updated Sep 23, 2024Sep 23, 2024
    • Repository for resources and documentation files of Zymo bioinformatics pipelines
      HTML
      1200Updated Sep 16, 2024Sep 16, 2024
    • Instructions for genetic variant detection from whole genome bisulfite sequencing (WGBS) data
      0200Updated Sep 12, 2024Sep 12, 2024
    • Docker container for Illumina bcl2fastq
      C
      141000Updated Aug 7, 2024Aug 7, 2024
    • figaro

      Public
      An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
      Python
      GNU General Public License v3.0
      2683282Updated Jul 12, 2024Jul 12, 2024
    • Jupyter Notebook
      0100Updated Jul 7, 2024Jul 7, 2024
    • Nextflow
      GNU General Public License v3.0
      0000Updated Jul 2, 2024Jul 2, 2024
    • Docker container for bcl-convert, an Illumina demultiplexing program
      Dockerfile
      1200Updated May 8, 2024May 8, 2024
    • Public repository to educate customers about bioinformatics pipelines and reports for services we offer
      HTML
      1310Updated Mar 15, 2024Mar 15, 2024
    • Repo for public-facing shotgun MIQ score
      HTML
      GNU General Public License v3.0
      5713Updated Feb 23, 2024Feb 23, 2024
    • Python script to facilitate uploading COVID-19 test results to departments of health
      Python
      GNU General Public License v3.0
      2811Updated Oct 18, 2023Oct 18, 2023
    • Python
      0000Updated Sep 25, 2023Sep 25, 2023
    • Script for the Zymo R2132 Kit on the KingFisher Flex Platform
      GNU General Public License v3.0
      0000Updated Sep 18, 2023Sep 18, 2023
    • Public repo for the MIQ score system for analyzing Zymo Gut Standard reads
      Python
      GNU General Public License v3.0
      1022Updated Jul 6, 2023Jul 6, 2023
    • Documentation and tools to develop pipelines that can be run on Aladdin
      0200Updated Jun 13, 2023Jun 13, 2023
    • iVar functionality for the VirSieve Pipeline by Zymo Research
      Python
      GNU General Public License v3.0
      1000Updated Apr 9, 2021Apr 9, 2021
    • Customer KingFisher script from Lallemand Health Solutions
      GNU General Public License v3.0
      0000Updated Sep 10, 2020Sep 10, 2020
    • Support package for MIQ score calculation and reporting on untargeted reads.
      Python
      GNU General Public License v3.0
      1000Updated Feb 26, 2020Feb 26, 2020
    • Public repo for miq scoring package for NGS reads
      Python
      GNU General Public License v3.0
      1300Updated Jan 8, 2020Jan 8, 2020