Release Notes for StereoMap

4.0.1 (July, 2024)

New entrance interface for Visual Explore, Image Processing, and Tools.
Open one .stereo manifest file in the SAW-generated bundle file for visualizing any datasets. No need to understand the correlation between visualization and the content of each file.
Adds functionalities in Visual Explore for manually labeling regions and organizing labels into groups.
Select label group and "Export differential analysis file" to set parameters export to the differential analysis pipeline in SAW.
StereoMap introduces a redesigned Image Processing tool to enable more accurate segmentation of Stereo-seq image data before exporting to SAW. This update includes:
- New and improved user interface for processing images in a list of recommended steps.
- Support for uploading segmentation binary .tif image results generated by any applications or algorithms at the tissue segmentation and cell segmentation steps. The uploaded segmentation binary result will be passed into SAW for extracting the tissue/cell matrix.
The Image Processing steps also include an image registration step, which allows for manually aligning Stereo-seq image with a spatial gene expression matrix.
Introduction of Image QC tool for evaluating image quality. The image passed QC can be auto-processed by SAW, otherwise, needs to be manually processed using the Image Processing tool.

Last updated 4 months ago

New entrance interface for Visual Explore, Image Processing, and Tools.
Open one .stereo manifest file in the SAW-generated bundle file for visualizing any datasets. No need to understand the correlation between visualization and the content of each file.
Adds functionalities in Visual Explore for manually labeling regions and organizing labels into groups.
Select label group and "Export differential analysis file" to set parameters export to the differential analysis pipeline in SAW.
StereoMap introduces a redesigned Image Processing tool to enable more accurate segmentation of Stereo-seq image data before exporting to SAW. This update includes:
- New and improved user interface for processing images in a list of recommended steps.
- Support for uploading segmentation binary .tif image results generated by any applications or algorithms at the tissue segmentation and cell segmentation steps. The uploaded segmentation binary result will be passed into SAW for extracting the tissue/cell matrix.
The Image Processing steps also include an image registration step, which allows for manually aligning Stereo-seq image with a spatial gene expression matrix.
Introduction of Image QC tool for evaluating image quality. The image passed QC can be auto-processed by SAW, otherwise, needs to be manually processed using the Image Processing tool.

Last updated 4 months ago