Melodyne version 3.2.2 is used in this tutorial.
You can use a tempo map to sync midi tempo information with variable tempo audio material.
Open the Arrangement Editor
1. First you will need to import or record your audio in Melodyne. Then open the arrangement editor. The example below is a 4/4 four bar drum performance with a fill at the beginning and minor variations in tempo.

Check Variable Tempo Edit Mode
2. Go into the edit menu (as shown below) and ensure that the Variable Tempo Editing Mode is checked.



Turn Off Quantization
3. Check to make sure that quantization is turned off. Find the quantize function in the upper right corner and click it until it is light grey.
Quantize On



Quantize Off



Line up Tempo Markers
4. Click on the bar line that is closest to the down beat of the audio. In our example, it is bar 2 on the time display. A blue line will appear after you click it. Click and hold the blue line, and then drag it to the down beat of the audio. Our example has a fill before the down beat, so we will move the blue line after the fill.
Before and After



5. Repeat this process for every bar of the audio material.
Before



After



In our example, the end result is as pictured below. Take note of the tempo changes between bars.



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