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github_url:https://github.com/PATRIC3/p3_docs/blob/master/docroot/tutorial/index.rst

Tutorials

The PATRIC website provides the capability to perform a broad array of analyses. These Tutorials provide step-by-step instructions for performing common tasks and analyses using the website. The examples are chosen to also provide a relevant biological context to help deomonstrate utility and interpretation of the data and results.

Genomics

.. toctree::
   :maxdepth: 1

   genome_assembly/assembly2.md
   genome_annotation/annotation.md
   genome_quality_report/genome_quality_report
   comprehensive-genome-analysis/comprehensive-genome-analysis2.md
   comprehensive-genome-analysis/cga-results.rst
   private_genome/private_genome.md
   blast/blast.md
   similar_genome_finder/similar_genome_finder.md
   submitting-the-comprehensive-genome-analysis-job/comprehensive-genome-analysis.md
   variation_analysis_service/variation_analysis_service.md
   tn-seq/tn-seq.md
   codon_tree_building/codon_tree_building.md
   fastq-utilities/fastq-utilities.rst
   searching_and_sorting/genomes_by_taxonomy.rst
   searching_and_sorting/protein_family_features.rst
   searching_and_sorting/features_with_roles.rst

Metagenomics

.. toctree::
   :maxdepth: 1

   metagenomic_read_mapping/metagenomic_read_mapping.rst
   taxonomic_classification/taxonomic_classification.md
   metagenomic_binning/metagenomic_binning
   metagenomic_binning/metagenomic_output


Transcriptomics

.. toctree::
   :maxdepth: 1

   expression_import/expression_import.md
   rna_seq_submission/submitting_rna_seq_job.md
   examining_transcriptomics_data/examining_transcriptomics_data.md


Protein Tools

.. toctree::
   :maxdepth: 1

   protein_family_sorter/protein_family_sorter.md
   proteome_comparison/proteome_comparison.md
   excel_formatting/excel_formatting.md
   alignments/multiple_sequence_alignment.rst


Metabolomics

.. toctree::
   :maxdepth: 1

   comparative_pathways/comparative_pathways.md
   metabolic_model_reconstruction/metabolic_model_reconstruction.md

Data

.. toctree::
   :maxdepth: 1

   id_mapper/id_mapper.md

Others

.. toctree::
   :maxdepth: 1

   genome_quality_report/genome_quality_report.md
   genome_groups/creating_genome_groups.md
   amr/amr.md
   binning_overview
   dev_at_argonne
   enabling_flash/enabling_flash
   sharing_data_in_the_workplace/sharing_data_in_the_workplace.md
   sharing-a-private-genome-in-patric/sharing-a-private-genome-in-patric.md
   building_cli.rst
   sars_cov_2_assembly_annotation/sars_cov_2_assembly_annotation.md