> For the complete documentation index, see [llms.txt](https://aidenlab.gitbook.io/juicebox/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://aidenlab.gitbook.io/juicebox/drawing-custom-annotations.md).

# Drawing Custom Annotations (Desktop)

## Drawing Annotations

We can record the differences we see in the GM12878 and IMR-90 maps.

1. Right click the heat map
2. Select `Enable diagonal edge` 
3. Draw custom hand annotations for the differential loops you see by holding down the`shift` key and drawing a box

![](/files/-Lj2js_gDo5insRL_WB1)

{% hint style="warning" %}
If you make a mistake, you can remove the annotation. Right click when within the box and select `Configure feature -> Delete`.
{% endhint %}

![](/files/-Lj2js_hkUSi1oDQk1Co)

## Editing Panel Options

You can also configure the annotations (both loaded and custom annotations) by clicking `Show Annotation Panel` and then the `2D Annotations` tab. The current layer is `Layer 0`.

![](/files/-Lj2js_iqIGSYUJkIK13)

* You can rename the annotation by typing the box 
* Clicking the pencil will make the layer editable (this is useful when you import annotations) 
* The eye icon is for selectively turning visibility on and off 
* The color box allows you to change the color of all annotations in this layer
* The shaded icon makes the annotation more translucent
* The dotted box artificially enlarges the annotation
* The solid box icon toggles through options for only showing the annotation above or below the diagonal; this is especially useful in VS mode with annotations loaded for different files
* The ellipsis enables a mode whereby not all annotations are painted at the same time; this is useful when there are a very large number of annotations loaded
* The backwards circle undoes the last annotation drawn
* The circle with a slash clears all annotations in this layer
* The mini heat map creates a submap (See the [Bonus Submapping section](/juicebox/submapping.md))
* The page with a green arrow allows you to export the annotations to a file on your local computer in the *.bedpe* human-readable format
* The two pages icon duplicates this layer
* The arrows allow you to move the annotation up and down in the list, and thus affects priority of which annotations are drawn (similar to Photoshop layers)
* The trash icon can deletes this layer