MGnify

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179 repositories

icefinder2
Public
JavaScript
•
Other
•0•0•0•0•Updated Feb 28, 2025Feb 28, 2025
emgapi-v2
Public
MGnify API (v2) and production automation system
api automation django slurm metagenomics prefect
Python
•1•1•0•2•Updated Feb 28, 2025Feb 28, 2025
mgnify-pipelines-toolkit
Public
Python
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Apache License 2.0
•1•0•0•1•Updated Feb 28, 2025Feb 28, 2025
amplicon-pipeline
Public
Nextflow
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Apache License 2.0
•1•6•0•2•Updated Feb 28, 2025Feb 28, 2025
genomes-catalogue-pipeline
Public
MGnify genome analysis pipeline
Python
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Other
•21•104•7•1•Updated Feb 28, 2025Feb 28, 2025
miassembler
Public
Nextflow
•
Apache License 2.0
•0•1•0•0•Updated Feb 28, 2025Feb 28, 2025
nf-modules
Public
Microbiome Informatics NF modules and sufworkflows
JavaScript
•1•5•0•3•Updated Feb 28, 2025Feb 28, 2025
deciphon
Public
Deciphon related projects
C
•0•0•0•0•Updated Feb 27, 2025Feb 27, 2025
mett-dataportal
Public
TypeScript
•0•0•0•0•Updated Feb 27, 2025Feb 27, 2025
combined-gene-caller
Public archive
MGnify combined gene caller tool
bioinformatics metagenomics
Python
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Apache License 2.0
•0•0•0•0•Updated Feb 27, 2025Feb 27, 2025
mgnifams
Public
Python
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Apache License 2.0
•0•1•0•0•Updated Feb 26, 2025Feb 26, 2025
taxdb_generation_nf
Public
Nextflow
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Apache License 2.0
•0•0•0•0•Updated Feb 25, 2025Feb 25, 2025
emg-viral-pipeline
Public
VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
workflow pipeline nextflow viruses cwl
Python
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Apache License 2.0
•16•130•19•2•Updated Feb 25, 2025Feb 25, 2025
HoloFoodR
Public
R interface for HoloFood resource
R
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Artistic License 2.0
•1•1•2•0•Updated Feb 24, 2025Feb 24, 2025
ebi-metagenomics-client
Public
This repos contains the MGnify web client
javascript client website webpack backbone
TypeScript
•1•4•0•9•Updated Feb 24, 2025Feb 24, 2025
pydantic-ro-crates
Public
A Python library that uses Pydantic and Schema.org to help crate RO-Crates (metadata packaged research objects)
python open-science schema-org research-object fair-data pydantic biohackathon-europe ro-crate biohackeu24
Python
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Apache License 2.0
•0•2•0•0•Updated Feb 22, 2025Feb 22, 2025
motus_pipeline
Public
Raw reads mOTUs and taxonomic classification pipeline
HTML
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Apache License 2.0
•1•3•0•1•Updated Feb 21, 2025Feb 21, 2025
hmmer3
Public
HMMER (version 3) related projects
C
•0•1•0•0•Updated Feb 21, 2025Feb 21, 2025
imm
Public
Invisible Markov model library.
C
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MIT License
•0•0•0•0•Updated Feb 20, 2025Feb 20, 2025
lite-pack
Public
C library implementing the MessagePack serialisation format.
C
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MIT License
•0•0•0•0•Updated Feb 20, 2025Feb 20, 2025
containers
Public
Repository to contain containers used by EBI Microbiome Informatics
Python
•0•0•0•1•Updated Feb 19, 2025Feb 19, 2025
genomes-generation
Public
Nextflow
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Apache License 2.0
•0•2•0•2•Updated Feb 18, 2025Feb 18, 2025
assembly-analysis-pipeline
Public
JavaScript
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Apache License 2.0
•0•0•0•0•Updated Feb 14, 2025Feb 14, 2025
mobilome-annotation-pipeline
Public
Python
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Apache License 2.0
•1•34•2•0•Updated Feb 13, 2025Feb 13, 2025
genome-properties-bioconda-recipes
Public
Conda recipes for the bioconda channel.
Shell
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MIT License
•3.4k•0•0•0•Updated Feb 5, 2025Feb 5, 2025
fetch_tool
Public
Tool which allows you to fetch RAW read files from the European Nucleotide Archive (ENA)
Python
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Apache License 2.0
•2•2•4•0•Updated Feb 3, 2025Feb 3, 2025
EukCC
Public
Tool to estimate genome quality of microbial eukaryotes
Python
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GNU General Public License v3.0
•9•36•21•0•Updated Jan 31, 2025Jan 31, 2025
.github
Public
0•0•0•0•Updated Jan 31, 2025Jan 31, 2025
genome-properties-api
Public
Python
•0•0•0•1•Updated Jan 31, 2025Jan 31, 2025
notebooks
Public
MGnify documentation and Jupyter Lab notebooks to support downstream analysis of MGnify data (EMBL-EBI's metagenomics platform)
python documentation metagenomics comparative-genomics notebooks rlang quarto shinyproxy jupyterlab-extension biohackeu22
Jupyter Notebook
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Apache License 2.0
•10•14•3•6•Updated Jan 31, 2025Jan 31, 2025