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- file: content/home
- file: content/recipes/introduction
title: Introduction
numbered: true
sections:
- file: content/recipes/introduction/ATI-turingway
- file: content/recipes/introduction/FAIR-cookbook-audience
- file: content/recipes/introduction/brief-FAIR-principles
- file: content/recipes/introduction/what-is-IMI
- file: content/recipes/introduction/FAIR-in-IMI-context
# - file: content/recipes/introduction/IMI-and-data-management-plans
- file: content/recipes/introduction/IMI-Data-Access-Request-Process
- file: content/recipes/introduction/FAIRplus-values
- file: content/recipes/introduction/data-sharing-models
# - file: content/recipes/cmmi
# title: Maturity models
# numbered: false
# -header: assessment
- file: content/recipes/assessing-fairness
title: Assessing FAIR
numbered: true
sections:
- file: content/recipes/assessing-fairness/cmmi/Data-Management-Maturity-Model
- file: content/recipes/assessing-fairness/cmmi/Datasets-Maturity-Model
- file: content/recipes/assessing-fairness/cmmi/Data-Usage-Areas
- file: content/recipes/assessing-fairness/fair-indicators
sections:
- file: content/recipes/assessing-fairness/cmmi/RDA-Indicators
- file: content/recipes/assessing-fairness/cmmi/FAIRPlus-Indicators
- file: content/recipes/assessing-fairness/manual-fair-assessment
sections:
- file: content/recipes/assessing-fairness/cmmi/evaluation-method
- file: content/recipes/assessing-fairness/cmmi/rda-evaluation
- file: content/recipes/assessing-fairness/automatic-fair-assessment
sections:
- file: content/recipes/assessing-fairness/fair-assessment-fairevaluator
- file: content/recipes/assessing-fairness/fair-assessment-fairshake
- file: content/recipes/infrastructure
title: Infrastructure for FAIR
numbered: true
sections:
- file: content/recipes/infrastructure/id-resolution
- file: content/recipes/infrastructure/data-catalog
- file: content/recipes/infrastructure/data-catalog-deployment
- file: content/recipes/infrastructure/vocabularies
sections:
- file: content/recipes/infrastructure/vocabularies/technical-and-architectural-selection-criteria-of-ontology-lookup-services
- file: content/recipes/infrastructure/vocabularies/Selecting_and_using_ontology_lookup_services
- file: content/recipes/infrastructure/vocabularies/UC3_R13_local_ontology_services
# - header: findability
- file: content/recipes/findability
title: Improving Findability
numbered: true
sections:
- file: content/recipes/findability/identifiers
- file: content/recipes/infrastructure/chemical-identities
- file: content/recipes/findability/identifiers-minids
- file: content/recipes/findability/zenodo-deposition
- file: content/recipes/findability/seo
sections:
- file: content/recipes/findability/seo/bioschemas-data-page
- file: content/recipes/findability/seo/bioschemas-dataset
- file: content/recipes/findability/seo/bioschemas-datacatalog
# - header: accessibility
- file: content/recipes/accessibility
title: Improving Accessibility
numbered: true
sections:
- file: content/recipes/accessibility/anonymization
- file: content/recipes/accessibility/how-to-use-sftp-for-transfer
- file: content/recipes/accessibility/aspera
- file: content/recipes/interoperability
title: Improving Interoperability
numbered: false
sections:
# - file: content/recipes/interoperability/ontology-robot/MSIO-robot-build-process.ipynb
- file: content/recipes/interoperability/selecting-ontologies
- file: content/recipes/interoperability/ontology-new-term-request-recipe
- file: content/recipes/interoperability/ontology-robot-recipe
sections:
- file: content/recipes/interoperability/ontology-robot/MSIO-robot-build-process.ipynb
- file: content/recipes/interoperability/creating-minimal-metadata-profiles
sections:
- file: content/recipes/interoperability/transcriptomics-metadata
- file: content/recipes/interoperability/covid19-sample-metadata-profile-shex-use-case
- file: content/recipes/interoperability/from-proprietary-to-open-standard-mzml-exemplar
- file: content/recipes/interoperability/fastq-file-format-validators
# -header: reusability
- file: content/recipes/reusability
title: Improving Reusability
numbered: true
sections:
- file: content/recipes/reusability/ATI-licensing
- file: content/recipes/reusability/ATI_licensing_software
- file: content/recipes/reusability/ATI_licensing_data
# - file: content/recipes/reusability/license-selection
- file: content/recipes/reusability/expressing-data-use
- file: content/recipes/reusability/provenance
- file: content/recipes/reusability/community-standards
- file: content/recipes/applied-examples
title: Making IMI data FAIR
numbered: false
sections:
- file: content/recipes/applied-examples/fair-data-matrix-recipe
numbered: false
sections:
- file: content/recipes/applied-examples/fair-data-matrix/0-rose-metabolites-Python-data-handling.ipynb
- file: content/recipes/applied-examples/fair-data-matrix/1-rose-metabolites-Python-analysis.ipynb
- file: content/recipes/applied-examples/fair-data-matrix/2-rose-metabolites-Python-RDF-querying-analysis.ipynb
- file: content/recipes/applied-examples/fair-data-matrix/3-rose-metabolites-R-analysis.ipynb
- file: content/recipes/applied-examples/etox_raw/FAIRplus_Recipe_Ontology_mapping_the_eTox_dataset_scenario
- file: content/recipes/applied-examples/nd4bb_raw/FAIRification_CookBook_Recipe1_V02
- file: content/recipes/applied-examples/oncotrack_raw/rawRecipe-oncotrack
- file: content/recipes/applied-examples/resolute_raw/rawRecipe_resolute
- file: content/recipes/glossary-fair-terms
title: Glossary of FAIR things
numbered: true
- file: content/recipes/help
title: Help
numbered: true
sections:
- file: content/recipes/help/tips-tricks
- file: content/recipes/help/recipe-template
- file: content/recipes/help/how-to-create-recipe-with-gdoc
- file: content/recipes/help/how-to-create-recipe-with-hackmd
- file: content/recipes/help/how-to-create-recipe-with-git
- file: content/recipes/boilerplate
title: Miscellaneous
numbered: true
sections:
- file: content/recipes/boilerplate/license
- file: content/recipes/boilerplate/people
- file: content/recipes/boilerplate/governance
- file: content/recipes/boilerplate/code_of_conduct
- file: content/recipes/boilerplate/project_information
- file: content/recipes/boilerplate/roadmap
- file: content/recipes/boilerplate/contributing
- file: content/recipes/boilerplate/disclaimer