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    33 repositories

    • q2-viromics

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•0•1•0•Updated Dec 23, 2024Dec 23, 2024

    • q2-amrfinderplus

      Public
      q2-amrfinderplus: QIIME 2 plugin to find acquired antimicrobial resistance genes and point mutations in protein and/or assembled nucleotide sequences with AMRFinderPlus.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•0•Updated Dec 23, 2024Dec 23, 2024

    • mishmash

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•7•0•Updated Dec 21, 2024Dec 21, 2024

    • utilities

      Public
      A collection of utilities used across repos.
      Shell
      •0•0•0•0•Updated Dec 20, 2024Dec 20, 2024

    • q2-moshpit

      Public
      QIIME 2 plugin for functional annotation and taxonomic classification of shotgun metagenomes.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •14•3•20•4•Updated Dec 20, 2024Dec 20, 2024

    • q2-assembly

      Public
      QIIME 2 plugin for (meta)genome assembly.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •13•4•10•2•Updated Dec 20, 2024Dec 20, 2024

    • q2-fondue

      Public
      Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •7•20•11•1•Updated Dec 20, 2024Dec 20, 2024

    • RESCRIPt

      Public
      REference Sequence annotation and CuRatIon Pipeline
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •26•94•15•0•Updated Dec 19, 2024Dec 19, 2024

    • moshpit-docs

      Public
      MOSHPIT plugin suite documentation
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•1•Updated Dec 16, 2024Dec 16, 2024

    • MOSHPIT

      Public
      Provides "mosh" cli command and "moshpit" proxy package.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•1•Updated Dec 11, 2024Dec 11, 2024

    • q2-pinocchio

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•1•2•Updated Dec 11, 2024Dec 11, 2024

    • q2-rgi

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•2•3•3•Updated Dec 9, 2024Dec 9, 2024

    • q2-virsorter2

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•2•Updated Dec 9, 2024Dec 9, 2024

    • q2-fastp

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Nov 27, 2024Nov 27, 2024

    • q2-ms

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•3•2•Updated Nov 18, 2024Nov 18, 2024

    • q2-kmerizer

      Public
      QIIME 2 plugin for generating kmers from biological sequences
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • nf-ducken

      Public
      Workflow to process amplicon meta-analysis data, from NCBI accession IDs to taxonomic diversity metrics.
      Nextflow
      •3•4•44•0•Updated Oct 24, 2024Oct 24, 2024

    • FermDB

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Sep 29, 2024Sep 29, 2024

    • uzh-microbiome-tutorial

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •2•3•0•0•Updated Sep 6, 2024Sep 6, 2024

    • DataVisualizationBook

      Public
      JupyterBook on data visualization for Food Scientists.
      Jupyter Notebook
      •1•0•1•0•Updated Aug 14, 2024Aug 14, 2024

    • Fermented-Food-Ontologies

      Public
      Substrate-based fermented food ontologies
      Python
      •
      Creative Commons Attribution 4.0 International
      •1•0•0•1•Updated Jul 12, 2024Jul 12, 2024

    • fgcz-metagenomics-workshop

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

    • q2-checkm

      Public
      QIIME 2 plugin for assessing the quality of (meta)genomes using CheckM.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•0•2•0•Updated Jun 5, 2024Jun 5, 2024

    • q2-types-genomics

      Public archive
      QIIME 2 types for genomics plugins.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •11•6•5•0•Updated May 21, 2024May 21, 2024

    • q2-exonerate

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 23, 2024Jan 23, 2024

    • advanced-comp-bio-tutorial

      Public
      Hands-on demonstration of 16S rRNA gene sequence analysis for SysBio Advanced Block Course 2022
      Jupyter Notebook
      •
      Apache License 2.0
      •2•4•1•0•Updated May 29, 2023May 29, 2023

    • q2-fondue-examples

      Public
      Materials accompanying q2-fondue article.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Aug 31, 2022Aug 31, 2022

    • q2-protein-pca

      Public
      QIIME2 plugin for PCA analysis of protein sequence phylogeny.
      pcaqiime2protein
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•3•9•0•Updated Jul 12, 2022Jul 12, 2022

    • q2-plugin-template

      Public template
      A skeleton for QIIME 2 plugins
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•0•0•Updated Jun 29, 2022Jun 29, 2022

    • cancer-microbiome-intervention-tutorial

      Public
      JupyterBook for QIIME 2 FAES January 2022 workshop
      Jupyter Notebook
      •
      Other
      •15•0•0•0•Updated Jun 2, 2022Jun 2, 2022