├── .github ├── ISSUE_TEMPLATE │ ├── bug_report.yml │ ├── config.yml │ ├── feature_request.yml │ └── question.yml └── workflows │ └── issue-autoreply.yml ├── .gitignore ├── .gitlab-ci.yml ├── .gitmodules ├── .pre-commit-config.yaml ├── CHANGELOG.md ├── LICENSE ├── README.md ├── bin ├── data ├── docs ├── 01_brief_description.md ├── 02_introduction.md ├── 03_compute_requirements.md ├── 04_install_and_run.md ├── 05_related_protocols.md ├── 06_input_example.md ├── 06_input_parameters.md ├── 07_outputs.md ├── 08_pipeline_overview.md ├── 09_troubleshooting.md ├── 10_FAQ.md └── 11_other.md ├── lib ├── main.nf ├── nextflow.config ├── nextflow_schema.json ├── output_definition.json ├── test ├── run_fastq_ingress_test.sh └── test_fastq_ingress.py └── test_data /.github/ISSUE_TEMPLATE/bug_report.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/epi2me-labs/wf-16s/HEAD/.github/ISSUE_TEMPLATE/bug_report.yml 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