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wiki:autolit:extraction:configure

Configure Intervention and Data Elements

In order to Extract, you first need to Configure Interventions and Data Elements, which you do from the Configure Study Tags page in order to reuse the structure you built during the Tagging stage.

Interventions correspond to the types of therapies/treatments/medications etc. that were compared across the articles and appear as purple in the Tagging Hierarchy. Data Elements refer to all other relevant data from the article that will be extracted and appear as gold in the Tagging Hierarchy.

Note: Only one hierarchy can be designated as your Intervention hierarchy, but any node in your hierarchy can be configured as a Data Element. There is no requirement, however, that every tag be configured as a data element!

Where does Extraction Configuration take place?

Extraction can be configured in two places: in the same location that Tags are configured or under “Configure Extraction” in the Extraction module. Extraction configuration is integrated into tagging configuration in order to use your existing hierarchy to structure your Interventions and Data Elements.

Configuring Interventions

1. Open the Extraction Configuration panel

Expand the “Extraction Configuration” dropdown button on the right.

2. Toggle to Interventions


3. Click on the "Interventions" Root Tag

The Intervention list on the right corresponds to all of the tags underneath the “Intervention” root tag

Intervention tags can easily be changed. For example, by simply clicking “Endpoints”, that set of tags is now an “Intervention”.

This is important to note because if you accidentally leave “Endpoints” as an Intervention and then you go to extract, the “Endpoints” tags will appear under the Intervention drop-down menu instead of the “Interventions” tags

Luckily, you can quickly navigate back to the Data Elements Menu within the Tagging Hierarchy, click on the “Interventions” root tag, and viola, your Interventions are Interventions once again!


Configuring Data Elements

1. View the Data Elements Menu

Navigate to the Data Elements Menu and click “Data Elements”

The data elements tab will show you a list of all tags, except the Interventions


2. Turn tag into Data Element

Click the plus sign next to a tag to turn the tag into a Data Element


3. Select the Data Type

Continuous, Dichotomous, or Categorical (Mandatory)

Depending on the data type, different inputs will populate. For example, if a data element is categorical, you will be able to specify the different categories.


4. Select the Expected Timepoint

Baseline or Outcome - Choose the Expected Timepoint based on whether the data was collected at Baseline or as an Outcome (Mandatory)

If the data element can be both a Baseline and an Outcome, choose Baseline.


5. Select the Direction

Higher Better or Lower Better (if applicable) - For example, the Data Element is “Mortality”, Lower Better would most likely be appropriate


6. Add the Measurement Units

Example: Mintues, mL, kg (if applicable)


7. Add the Central Tendency Measurement

Mean or Median (Mandatory for continuous variables) - After choosing Mean or Median, it will also ask you about “Dispersion Measure” (SD for Mean; IQR or Range for Median)


8. Click Save

Confirm that the configuration worked based on whether the node turned gold, and move on to configure any other Data Elements of interest

wiki/autolit/extraction/configure.txt · Last modified: 2022/11/20 09:39 by nicole_hardy_alumni.brown.edu