├── .gitignore ├── LICENSE.txt ├── MANIFEST.in ├── README.md ├── README.rst ├── docs ├── Makefile ├── _static │ ├── count_summary.png │ ├── logo.png │ ├── sequence_quality.png │ ├── style.css │ └── taxonomy_summary.png ├── _templates │ └── layout.html ├── conf.py ├── index.rst ├── install.rst ├── output.rst ├── parameters.rst └── usage.rst ├── example ├── example_its │ ├── MF1-MC0095-D2_R1.fastq.gz │ ├── MF1-MC0095-D2_R2.fastq.gz │ ├── MF1-MC0116-D2_R1.fastq.gz │ ├── MF1-MC0116-D2_R2.fastq.gz │ ├── MF1-MC0154-D2_R1.fastq.gz │ ├── MF1-MC0154-D2_R2.fastq.gz │ ├── MF1-MC0187-D2_R1.fastq.gz │ └── MF1-MC0187-D2_R2.fastq.gz ├── mothur_sop_data │ ├── F3D141_S207_L001_R1_001.fastq.gz │ ├── F3D141_S207_L001_R2_001.fastq.gz │ ├── F3D142_S208_L001_R1_001.fastq.gz │ ├── F3D142_S208_L001_R2_001.fastq.gz │ ├── F3D143_S209_L001_R1_001.fastq.gz │ ├── F3D143_S209_L001_R2_001.fastq.gz │ ├── F3D144_S210_L001_R1_001.fastq.gz │ ├── F3D144_S210_L001_R2_001.fastq.gz │ ├── Sample1_R1.fastq.gz │ └── 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