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MGnify (EBI-Metagenomics)

MGnify

EBI-Metagenomics

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

Location:Genome Campus, UK

Home Page:https://www.ebi.ac.uk/metagenomics/

Twitter:@MGnifyDB

Github PK Tool:Github PK Tool

MGnify's repositories

emg-viral-pipeline

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

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mettannotator

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mobilome-annotation-pipeline

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MGnifyR

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

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kegg-pathways-completeness-tool

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notebooks

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

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mgnify-web

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

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amplicon-pipeline

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ebi-metagenomics-client

This repos contains the MGnify web client

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nf-modules

Microbiome Informatics NF modules and sufworkflows

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fetch_tool

Tool which allows you to fetch RAW read files from the European Nucleotide Archive (ENA)

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genomes-generation

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hmmer3

HMMER (version 3) related projects

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HoloFoodR

R interface for HoloFood resource

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mgnifams

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mgnifams-site

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miassembler

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MAG-to-assembly-pipeline

Nextflow pipeline that wraps the assembly-MAG linking script

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mgnify-pipelines-toolkit

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containers

Repository to contain containers used by EBI Microbiome Informatics

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CRISPRCasFinder

A Perl script allowing to identify CRISPR arrays and associated Cas proteins from DNA sequences

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deciphon

Deciphon related projects

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imm

Invisible Markov model library.

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lite-pack

C library implementing the MessagePack serialisation format.

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metagenomics-bioinformatics-mgnify-2023

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metagenomics-bioinformatics-mgnify-2024

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mett-dataportal

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microeuks-gene-benchmarker

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

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multiqc_dada2_plugin

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shallowmapping

Shallow-shotgun mapping pipeline

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