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Schemasheets - make datamodels using spreadsheets

Tests PyPI PyPI - Python Version PyPI - License Code style: black

linkml logo google sheets logo

Create a data dictionary / schema for your data using simple spreadsheets - no coding required.

About

Schemasheets is a framework for managing your schema using spreadsheets (Google Sheets, Excel). It works by compiling down to LinkML, which can itself be compiled to a variety of formalisms, or used for different purposes like data validation

Documentation

See the Schema Sheets Manual

Quick Start

pip install schemasheets

You should then be able to run the following commands:

  • sheets2linkml - Convert schemasheets to a LinkML schema
  • linkml2sheets - Convert a LinkML schema to schemasheets
  • sheets2project - Generate an entire set of schema files (JSON-Schema, SHACL, SQL, ...) from Schemasheets

As an example, take a look at the different tabs in the google sheet with ID 1wVoaiFg47aT9YWNeRfTZ8tYHN8s8PAuDx5i2HUcDpvQ

The personinfo tab contains the bulk of the metadata elements:

record field key multiplicity range desc schema.org
> class slot identifier cardinality range description exact_mappings: {curie_prefix: sdo}
>
id yes 1 string any identifier identifier
description no 0..1 string a textual description description
Person n/a n/a n/a a person,living or dead Person
Person id yes 1 string identifier for a person identifier
Person, Organization name no 1 string full name name
Person age no 0..1 decimal age in years
Person gender no 0..1 decimal age in years
Person has medical history no 0..* MedicalEvent medical history
Event grouping class for events
MedicalEvent n/a n/a n/a a medical encounter
ForProfit
NonProfit

This demonstrator schema contains both record types (e.g Person, MedicalEvent) as well as fields (e.g. id, age, gender)

You can convert this like this:

sheets2linkml --gsheet-id 1wVoaiFg47aT9YWNeRfTZ8tYHN8s8PAuDx5i2HUcDpvQ personinfo types prefixes -o personinfo.yaml

This will generate a LinkML YAML file personinfo.yaml from 3 of the tabs in the google sheet

You can also work directly with TSVs:

wget https://raw.githubusercontent.com/linkml/schemasheets/main/tests/input/personinfo.tsv 
sheets2linkml personinfo.tsv  -o personinfo.yaml

We recommend using COGS to synchronize your google sheets with local files using a git-like mechanism

Examples

Finding out more