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GitHub / uel3 / nf-core-uno

metagenomics pipeline supporting The UnO Project for identifying pathogens in common across outbreak samples

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/uel3%2Fnf-core-uno

Stars: 0
Forks: 0
Open Issues: 1

License: mit
Language: Nextflow
Repo Size: 453 KB
Dependencies: 27

Created: 3 months ago
Updated: 15 days ago
Last pushed: 15 days ago
Last synced: 15 days ago

Topics: binning, metagenomics, outbreak-detection, pathogen

Files
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    Readme
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    Dependencies
    .github/workflows/awsfulltest.yml actions
    .github/workflows/awstest.yml actions
    .github/workflows/branch.yml actions
    .github/workflows/ci.yml actions
    .github/workflows/clean-up.yml actions
    .github/workflows/download_pipeline.yml actions
    .github/workflows/fix-linting.yml actions
    .github/workflows/linting.yml actions
    .github/workflows/linting_comment.yml actions
    .github/workflows/release-announcements.yml actions
    modules/nf-core/custom/dumpsoftwareversions/meta.yml cpan
    modules/nf-core/fastqc/meta.yml cpan
    modules/nf-core/multiqc/meta.yml cpan
    modules/nf-core/trimmomatic/meta.yml cpan
    pyproject.toml pypi
    modules/nf-core/bowtie2/align/meta.yml cpan
    modules/nf-core/bowtie2/build/meta.yml cpan
    modules/nf-core/fastp/meta.yml cpan
    modules/nf-core/megahit/meta.yml cpan
    modules/nf-core/maxbin2/meta.yml cpan
    modules/nf-core/metabat2/jgisummarizebamcontigdepths/meta.yml cpan
    modules/nf-core/metabat2/metabat2/meta.yml cpan
    modules/local/midas2/meta.yml cpan
    modules/nf-core/dastool/dastool/meta.yml cpan
    modules/nf-core/dastool/fastatocontig2bin/meta.yml cpan
    modules/nf-core/gunzip/meta.yml cpan
    modules/local/midas2/environment.yml conda
    modules/nf-core/maxbin2/environment.yml conda
    modules/nf-core/metabat2/jgisummarizebamcontigdepths/environment.yml conda
    modules/nf-core/metabat2/metabat2/environment.yml conda
    modules/nf-core/aria2/meta.yml cpan
    modules/nf-core/checkm/lineagewf/meta.yml cpan
    modules/nf-core/checkm/qa/meta.yml cpan
    modules/nf-core/gtdbtk/classifywf/meta.yml cpan
    modules/nf-core/aria2/environment.yml pypi
    modules/nf-core/bowtie2/align/environment.yml pypi
    modules/nf-core/bowtie2/build/environment.yml pypi
    modules/nf-core/checkm/lineagewf/environment.yml pypi
    modules/nf-core/checkm/qa/environment.yml pypi
    modules/nf-core/custom/dumpsoftwareversions/environment.yml pypi
    modules/nf-core/dastool/dastool/environment.yml pypi
    modules/nf-core/dastool/fastatocontig2bin/environment.yml pypi
    modules/nf-core/fastp/environment.yml pypi
    modules/nf-core/fastqc/environment.yml pypi
    modules/nf-core/gtdbtk/classifywf/environment.yml pypi
    modules/nf-core/gunzip/environment.yml pypi
    modules/nf-core/megahit/environment.yml pypi
    modules/nf-core/multiqc/environment.yml pypi
    modules/nf-core/trimmomatic/environment.yml pypi