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Dataset = Template + Data: In order to help SCI researchers make their data FAIR, ODC-SCI has implemented a data upload workflow based on templates. Templates represent the set of data fields you have collected or are planning to collect. In a spreadsheet, the template would be the collection of column headers. Data sets are created in ODC-SCI by adding data to templates. Templates can be created manually or they can be extracted from existing data files.
Why does ODC-SCI use templates instead of just allowing researchers to upload their data files directly? The goal of ODC-SCI is to create data that are FAIR: Findable, Accessible, Interoperable and Reusable. Templates directly address the Interoperability requirement in two ways. First, templates can be reused by other members of ODC-SCI. When templates are re-used, data sets can be more easily combined, because data has been collected according to the same data model across data sets and laboratories. Second, ODC-SCI encourages researchers to use the Common Data Elements (CDE’s) when creating a new template or to map existing templates to CDE's. Common Data Elements also make it possible to aggregate data, because they indicate what fields two data sets have in common, even if they use different templates. So CDE's make it possible to answer a question: What is the average age of all rodents used across ODC SCI?
Once you have created or selected a template, you can add data to it and share it with your lab members. Sharing data with ODC-SCI or the public requires permission from the lab head.
Summary of main steps for adding data:
All data is added to a template. The templates are essentially the names of the data fields that you have collected. Templates can be created manually or they can be extracted from existing data files. ODC-SCI encourages researchers to use the Common Data Elements (CDE’s) when creating a new template. For existing data, ODC-SCI provides the ability to map data fields to the CDE’s.
A Common Data Element (CDE) is a data element that is common to multiple data sets across different studies. In most spreadsheets, the data element is the name of the data field, e.g., age. ODC-SCI has agreed on a list of CDE’s that either should or can be collected in a given experiment. Using CDE’s makes it easier to combine data across experiments and experimenters.
Upload your data to the template. CSV stands for comma separated value and is an open format for spreadsheets. Most spreadsheet programs, including Excel, allow you to convert to CSV by choosing the “Export” option or “Save as” option, and select CSV as the output.
Share your data with other members of your lab. Although ODC-SCI encourages labs to share data with other members and the public, doing so requires permission from the PI.
Create a template
Select Add data --> Create new dataset, then select a method for creating a template. ODC-SCI provides 3 ways to create a template to which to add your data.
What you will need:
What you will do (see visual tutorials for each step below):
Go to "Upload your file"
Upload your file to extract template
Prepare your template by selecting subject field, arranging your data fields and data fields to CDE's
Upload your data to the template
Share your data with lab members
What you will need
What you will do (see visual tutorials below)