Opening the Query Builder
The Builder can be accessed from several different resources in Ignition, notably when using Named Queries and setting up Report Data. To use the Builder, click the Show Builder button.

Clicking this button will open the Builder workspace with an empty query. If a query was already written before the button was pressed, then the Builder will attempt to load the query into the Builder's interface. For example, if the following query was typed before pressing the button:
The following would be loaded into the Builder's workspace. Note that the Building Area is empty, because we're not querying from a table.

The Builder attempts to parse your query based on the Syntax Parser.
Using the Syntax Parser
When starting with a pre-existing query, the Syntax Parser tells the Builder which implementation of SQL your query's syntax is using. In most cases, this can be left with the default value of Universal. When set to a specific implementation of SQL, this allows the Builder to understand/accept implementation-specific keywords and syntax.

Syntax Parser in Action
In MySQL, query results may be limited with the LIMIT keyword:
SELECT
*
FROM
myTable
LIMIT
100
Attempting to open the Builder while using LIMIT, and the Syntax Parser is configured to a syntax that does recognize the LIMIT keyword, will result in an error:

In these scenarios, you can switch to a syntax that supports the query, or remove the offending lines.
Using the Builder
Once the Builder is open, (and if you have tables in your database connection), you can start building a query by dragging and dropping a table from the Table List into the Building Area. From here, you can select which columns on the Table Object you want to bring into the query, or drag and drop them into the Columns Table below.
The * option at the top of the table is special. If the * character is selected, then all columns from the table will be included in the results just like a "SELECT * " query.

Query Properties
Right clicking on the empty space in the Building Area and selecting properties will bring up the Query Properties window that allows you to customize how the query works. How it looks and what it contains can vary, depending on what syntax parser you have selected.