StrataQuest Analysis Software

StrataQuest overview page

SQ Logo 2017 V2 small Context-based Analysis

StrataQuest is TGs most evolved image processing solution for both brightfield and fluorescence images.

It can automatically detect most tissular structures on a digital slide. It integrates detected objects into detailed context-based quantitative analysis.

The software is also an ideal image processing environment for clinicial researchers and dedicated image processors.

SQ APP Logo 2017 V1 small There are well over 50 StrataQuest APPs (modules, number constantly growing) which can be used for automated analysis.

StrataQuest is integrated into the following TG analysis systems:

Standalone  StrataQuest is also available as a standalone software.

 Importer  StrataQuest has importers for the following digital image or slide formats:

  • 3D Histech (.mrxs)
  • Hamamatsu (.ndpi)
  • Zeiss Axio Scan (.czi)
  • Yokogawa CQ1 Confocal scanner
  • Aperio scanners (.svs)
  • Leica (.scn)
  • Keyence
  • Perkin Elmer (.qptiff)
  • Images (.jpeg, .tif, .bmp, .png)


StrataQuest - as easy as you need it, as powerful as you want it...

StrataQuest packs unprecedented analysis performance into a well organized interface.

It also puts it at the fingertips of users who do not have the experience, specialised mathematical know how or simply the time for high level image analysis.


Easy - It is all done with APPs!

SQ APP Logo 2017 V1 small


A StrataQuest APP is simply an analysis solution for a specific task. It is complete up to the point of providing the specific analysis results ready to be exported to, e.g., Excel or CSV formats.

This is complemented by an export function for all images from the software.

The core feature of an APP is a simplified, tabbed "Easy Mode" user interface. While an APP is meant to be run by simply clicking the "Analyse" button, the interface allows the user to make adaptations to sample/staining variance if necessary.

SQ EZ mode final

TGs decade-long experience in providing analysis solutions to the biosciences market has taught that vaunted "only one click" products work - but only on the textbook quality image on which they are presented.


See a StrataQuest brightfield APP selection       SQ APP Logo 2017 V1 small

See a StrataQuest fluorescence APP selection  SQ APP Logo 2017 V1 small 

See  StrataQuest APP application examples      SQ APP Logo 2017 V1 small


To boldly analyse what has not been analysed before

StrataQuest advanced features allow more experienced users to build their own solutions. 

The ideal tool to do this is StrataQuests logically structured Advanced Mode interface and highly adaptable sample viewer. 



Solutions created in Advanced Mode can be given an Easy Mode interface and saved as APPs for others to use. 


SQ Logo 2017 V2 small Plugin  Matlab  Image J  FIJI


This capability, together with the possibility to plug in Matlab, ImageJ and FIJI solutions also make StrataQuest an ideal tool for imaging core facilities.



Cell sorting and cell cluster features

StrataQuest provides a special dual purpose feature set.

One purpose is visually sorting and marking specific cell types for , e.g., harvesting in the TissueFAXS SORT system.

The other purpose is detecting and analysing small cell subunits within a larger organ („clusters“in the StrataQuest nomenclature). Clusters are defined by a specific central cell (phenotyped by its staining) and the other cluster cells by distance and optionally also by specific staining.

The image below describes the main parts of both workflows on the basis of a colon sample stained with DAPI and for FOXP3, CD25 and CD4.


Question head 70x70Want to know more about StrataQuest capabilities?

Please just let us know.


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Pursuant to the requirements of the General Data Pretection Regulation (EU) we will process your data as long as needed to provide you with the requested information, after which your data will be restricted, .i.e. locked and not processed for other purposes.

Your consent to us processing your data can be revoked at any time - please inform us about this via e-mail to

For further information see our Privacy and Data Protection Policy.

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