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@EBI-Metagenomics

MGnify

MGnify (formerly known as EBImetagenomics) is a free resource for the assembly, analysis, archiving and browsing all types of microbiome derived sequence data

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  1. pipeline-v5 pipeline-v5 Public

    This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

    HTML 21 18

  2. emg-viral-pipeline emg-viral-pipeline Public

    VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies

    Python 120 16

  3. genomes-catalogue-pipeline genomes-catalogue-pipeline Public

    MGnify genome analysis pipeline

    Python 97 21

  4. mgnify-web mgnify-web Public

    Parent repo for MGnify's (EMBL-EBI's metagenomics platform) API and web client. Designed for local development.

    Python 5

  5. notebooks notebooks Public

    MGnify documentation and Jupyter Lab notebooks to support downstream analysis of MGnify data (EMBL-EBI's metagenomics platform)

    Jupyter Notebook 12 10

  6. genome_uploader genome_uploader Public

    Python script to upload bins and MAGs to ENA (European Nucleotide Archive)

    Python 20 3

Repositories

Showing 10 of 166 repositories
  • mett-dataportal Public
    EBI-Metagenomics/mett-dataportal’s past year of commit activity
    Python 0 0 0 0 Updated Sep 20, 2024
  • deciphon Public

    Deciphon related projects

    EBI-Metagenomics/deciphon’s past year of commit activity
    C 0 0 0 0 Updated Sep 20, 2024
  • miassembler Public
    EBI-Metagenomics/miassembler’s past year of commit activity
    Nextflow 1 Apache-2.0 0 0 2 Updated Sep 20, 2024
  • imm Public

    Invisible Markov model library.

    EBI-Metagenomics/imm’s past year of commit activity
    C 0 MIT 0 0 0 Updated Sep 19, 2024
  • hmmer3 Public

    HMMER (version 3) related projects

    EBI-Metagenomics/hmmer3’s past year of commit activity
    C 1 0 0 0 Updated Sep 19, 2024
  • ebi-metagenomics-client Public

    This repos contains the MGnify web client

    EBI-Metagenomics/ebi-metagenomics-client’s past year of commit activity
    TypeScript 4 1 0 10 Updated Sep 19, 2024
  • lite-pack Public

    C library implementing the MessagePack serialisation format.

    EBI-Metagenomics/lite-pack’s past year of commit activity
    C 0 MIT 0 0 0 Updated Sep 19, 2024
  • metagenomics-bioinformatics-mgnify-2024 Public Forked from EBI-Metagenomics/metagenomics-bioinformatics-mgnify-2023
    EBI-Metagenomics/metagenomics-bioinformatics-mgnify-2024’s past year of commit activity
    SCSS 0 Apache-2.0 2 0 1 Updated Sep 19, 2024
  • MGnifyR Public

    R package for searching, downloading and analysis of EBI MGnify metagenomics data

    EBI-Metagenomics/MGnifyR’s past year of commit activity
    R 19 Artistic-2.0 11 5 1 Updated Sep 19, 2024
  • microeuks-gene-benchmarker Public

    Scripts to benchmark the outputs from gene annotation tools for microbial eukaryotes

    EBI-Metagenomics/microeuks-gene-benchmarker’s past year of commit activity
    0 Apache-2.0 0 0 1 Updated Sep 18, 2024
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