# ImageStudio (End of Support)

{% hint style="info" %}
The main features of **ImageStudio** have been integrated into **StereoMap** and were officially released with **StereoMap 4.0.0** in June 2024.\
As of September 2025, maintenance for all versions of ImageStudio has been discontinued. The corresponding features will continue to be supported within StereoMap.\
We sincerely thank all users for their trust and support of ImageStudio over the years.
{% endhint %}

{% hint style="warning" %}
Due to changes in third-party server services, **the upload function following image QC** (quality control) in previous versions (**StereoMap 4.0 & 4.1**, **ImageStudio 3.0**) may encounter connection issues or failures. As a result, the embedded Raysync upload path within the software requires modification. For specific details regarding the update patch, please refer to the [Patch\_UploadConfiguration\_202506](https://stereotoolss-organization.gitbook.io/stomics-software-download/pages/pGKOpFk334xD5zVsVE5y#patch_uploadconfiguration_202506-jun.-2025).

This update does not affect other major features of StereoMap and ImageStudio. If you do not need to upload files after image QC, you may choose to skip this update patch. We apologize for any inconvenience this may cause and appreciate your understanding and support.
{% endhint %}

## ImageStudio 3.0.5 (Sep., 2024)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_3.0.5.exe"><strong>Download for Windows</strong></a></td><td><p>File size: 593.5M</p><p>md5: 9cf8e5b40ec0e2230e81f3613c927a05</p></td></tr></tbody></table>

ImageStudio 3.0.0-3.0.5 highlights:

* Supported for **H\&E image** quality control, stitching, and segmentation.&#x20;
* Added performance monitor for memory usage, disk storage space, CPU usage, and I/O usage.
* Fixed several issues related to image stitching and calibration.&#x20;
* Fixed the quality check issue identified in mIF images.&#x20;
* Fixed the issue of being unable to import image files in tissue segmentation and cell segmentation modules.&#x20;
* Fixed the issue of being unable to re-do image quality control for the `.tar.gz` file of STOmics Go Optical image tiles data.

## ImageStudio 2.2.3 (Apr., 2024)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_2.2.3.zip"><strong>Download for Windows</strong></a></td><td><p>File size: 859.9M</p><p>md5: c55657ecac3f1f073da9884cbf86bee7</p></td></tr></tbody></table>

ImageStudio 2.2.0-2.2.3 highlights:

* Added Alibaba Cloud image upload configuration for Asia-Pacific Singapore region.&#x20;
* Fixed several issue of image QC.
* Resolved the error encountered in the open tissue and cell segmentation module for certain stitched images.

## ImageStudio 2.1.2 (Aug., 2023)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_2.1.2.zip"><strong>Download for Windows</strong></a></td><td><p>File size: 785.1M</p><p>md5: 34517827e1646461a0ed64b57c75be6e</p></td></tr></tbody></table>

ImageStudio 2.1.0-2.1.2 highlights:

* Supported the re-evaluation of image quality control (QC) on `.tar.gz` images that have previously undergone QC.
* Supported for QC DAPI + mIF images from Zeiss multi-channel microscope.
* **New manual stitching method!** The new method utilizes the similarity of overlap regions in adjacent FOVs to create the final stitched image.
* The QC output image `.tar.gz` file can be directly used for image stitching, tissue segmentation, and cell segmentation modules without requiring SAW processing.&#x20;
* The **rectangle auto-segment tool** in the tissue and cell segmentation module has been divided into two options: *Replace* and *Update*. The replace option will completely replace the old mask with the new mask in the area you selected. In contrast, the update option will only modify the mask in the selected region while leaving the rest of the mask unchanged.

## ImageStudio 2.0.2 (May, 2023)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_2.0.2.zip"><strong>Download for Windows</strong></a></td><td><p>File size: 703.0M</p><p>md5:c67e9acb33a2a1dce5e49263ade7d440</p></td></tr></tbody></table>

ImageStudio 2.0.0-2.0.2 highlights:

* Supported for **QC DAPI and up to 6 multi-immunofluorescence (mIF) images** in a image QC task. The supported IF image type is single-channel immunofluorescence image.
* Supported for manually stitching DAPI image.
* Added a new **Calibration module** for matching IF images with DAPI image based on their morphological features.
* **Tissue segmentation in an IF image utilizes immunofluorescence intensity**. The "tissue" area is determined by setting an IF intensity threshold. By adjusting the minimum and maximum cutoff values, pixels with intensities within this range are identified and marked as the "tissue" region.
* **Cell segmentation in an IF image uses both the DAPI cell mask and the IF tissue mask**. IF cell segmentation identifies DAPI-stained cells that are located within the IF-defined tissue area.
* Fix several issues of image QC for DAPI+mIF images.
* Update technical support contact email.&#x20;

## ImageStudio 1.2.0 (Apr., 2023)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><p><a href="https://enfile.stomics.tech/ImageStudio_1.2.0.zip"><strong>Download for Windows</strong></a></p><p>File size: 681.6M</p><p>md5: 1f4e27181e5dc81082757ffde0c32eaf</p></td><td></td></tr></tbody></table>

ImageStudio 1.2.0 highlights:

* Added AWS upload configuration for Asia-Pcific (Singapore) and America (California).

## ImageStudio 1.1.0 (Mar., 2023)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_1.1.0.zip"><strong>Download for Windows</strong></a></td><td><p>File size: 674.5M</p><p>md5: 26f22c2a0f17121012f3c04387ec9b1c</p></td></tr></tbody></table>

ImageStudio 1.1.0 highlights:

* Fix the issue of unable to open image QC module on Windows 10 Home and Enterprise edition.&#x20;
* Fix the out-of-memory issue when performing QC tasks on multiple images simultaneously.

## ImageStudio 1.0.0 (Feb., 2023)

<table data-card-size="large" data-view="cards"><thead><tr><th></th><th></th></tr></thead><tbody><tr><td><a href="https://enfile.stomics.tech/ImageStudio_1.0.0.zip"><strong>Download for Windows</strong></a></td><td><p>File size: 646.9M</p><p>md5: 3bba473acdeacfa352c0a44ff0898438</p></td></tr></tbody></table>

ImageStudio 1.0.0 highlights:

* The initial release of the Stereo-seq desktop application for image processing, including **Image QC**,  **Image Stitching**, **Tissue Segmentation** and **Cell Segmentation**.
* Image Stitching: marking trackline intersections to assist in stitching images.
* Tissue Segmentation:&#x20;
  * **Rectangle Lasso and Auto-Detection**: This tool allows you to draw a rectangular selection, and ImageStudio will automatically identify tissue regions within the selected area. It's useful for quickly selecting large regions.
  * **Polygonal Lasso**: This tool lets you create an irregularly shaped region for segmentation. It's ideal for selecting large regions with more precision than the rectangle lasso.
  * **Brush and Eraser**: These tools enable you to manually paint over areas to include or exclude them from the selection, making them useful for fine-tuning the segmentation.
  * **Cavity Filling and Noise Filtering**: These tools fill gaps and remove small, irrelevant details from the image.
* Cell Segmentation:
  * **Brush and Eraser**: These tools allow you to manually paint over cell areas to include or exclude them from the selection, making them useful for fine-tuning the segmentation.
  * **Auto-Detection**: Automatically identifies cell areas, performing particularly well in regions where cells are sparse.


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