---
# System prepended metadata

title: FAIR cookbook recipe template

---

# FAIR cookbook recipe template


# Table of Contents
1. [Main FAIRification Objectives](#Main%20FAIRification%20Objectives)
2. [Graphical Overview of the FAIRification Recipe Objectives](#Graphical%20Overview%20of%20the%20FAIRification%20Recipe%20Objectives)
3. [FAIRification Objectives, Inputs and Outputs](#FAIRification%20Objectives,%20Inputs%20and%20Outputs)
4. [Capability & Maturity Table](#Capability%20&%20Maturity%20Table)
5. [Table of Data Standards](#Table%20of%20Data%20Standards)
6. [Executable Code in Notebook](#Executable%20Code%20in%20Notebook)
7. [How to create workflow figures](#How%20to%20create%20workflow%20figures)
8. [License](#License)

---

## Main Objectives

The main purpose of this recipe is:

> Making self describing tabular data using Frictionless tools instead of dumping Excel files.

___


## Graphical Overview of the FAIRification Recipe Objectives


___

## Capability & Maturity Table

| Capability  | Initial Maturity Level | Final Maturity Level  |
| :------------- | :------------- | :------------- |
| Interoperability | minimal | repeatable |

----

## Main body of the recipe

-step1
-step2
-step3


----



## FAIRification Objectives, Inputs and Outputs

| Actions.Objectives.Tasks  | Input | Output  |
| :------------- | :------------- | :------------- |
| [validation](http://edamontology.org/operation_2428)  | [Structure Data File (SDF)](https://fairsharing.org/FAIRsharing.ew26v7)  | [report](http://edamontology.org/data_2048)  |
| [calculation](http://edamontology.org/operation_3438)  | [Structure Data File (SDF)](https://fairsharing.org/FAIRsharing.ew26v7) | [InChi](https://fairsharing.org/FAIRsharing.ddk9t9) |
| [calculation](http://edamontology.org/operation_3438)  | [Structure Data File (SDF)](https://fairsharing.org/FAIRsharing.ew26v7)  | [SMILES](https://fairsharing.org/FAIRsharing.qv4b3c)  |
| [text annotation](http://edamontology.org/operation_3778)  | [Human Phenotype Ontology](https://fairsharing.org/FAIRsharing.kbtt7f)  | [annotated text](http://edamontology.org/data_3779)  |


## Table of Data Standards

| Data Formats  | Terminologies | Models  |
| :------------- | :------------- | :------------- |
| [FASTQ](https://fairsharing.org/FAIRsharing.r2ts5t)  | [LOINC](https://fairsharing.org/FAIRsharing.2mk2zb)  | [SRA XML](https://fairsharing.org/FAIRsharing.q72e3w)  |
| [DICOM](https://fairsharing.org/FAIRsharing.b7z8by)  | [Human Phenotype Ontology](https://fairsharing.org/FAIRsharing.kbtt7f)  | [OMOP](https://fairsharing.org/FAIRsharing.qk984b)  |

___


## Executable Code in Notebook


```python
import isatools
import json
import pandas as pd 
import holoview
```

___

## How to create workflow figures

one may use the following **[mermaid](https://mermaid-js.github.io/mermaid/#/)** syntax:

```
graph LR;
    A[Data Acquisition] -->B(Raw Data)
    B --> C{FAIR by Design}
    C -->|Yes| D[Standard Compliant Data]
    C -->|No| E[Vendor locked Data]
```

___



## Authors:

| Name | Affiliation  | orcid | CrediT role  |
| :------------- | :------------- | :------------- |:------------- |
| Philippe Rocca-Serra |  University of Oxford, Data Readiness Group| [0000-0001-9853-5668](https://orcid.org/orcid.org/0000-0001-9853-5668) | Writing - Original Draft |
| Susanna-Assunta Sansone |  University of Oxford, Data Readiness Group | | Writing - Review & Editing, Funding acquisition | 

___


## License:

<a href="https://creativecommons.org/licenses/by/4.0/"><img src="https://mirrors.creativecommons.org/presskit/buttons/80x15/png/by-sa.png" height="20"/></a>
