This diagram represents the key features of our Graphic User Interface (GUI). Click on the different boxes to get more informations.

Commands

The application provides clear and flexible separation of ‘expert’ and ‘user’ usage patterns. Flexible screen layouts management allow instant adaptation of the GUI to the application features subset required (i.e. present to the user only the required features and hide unnecessary ones). In fluoresence studies, the superposition of all the color planes corresponding to the different probes is easily done, or each color plane can be viewed in an independant way.


A possibility to complete the detection results provided by the image processing functions (i.e. detection protocols) is offered with the “outline” interactive tool to include undetected objects in the quantitative analysis.

review et validate mouse lymphoma

A disadvantage of dedicated (‘vertical’) systems is that frequently they do not provide any means of visual validation of the results (i.e. it is impossible to check which objects were counted and which were rejected). Our “Review and Validate” is an interactive software tool which enables the user to include or reject the automatic detection results by reviewing them one by one. This is a key tool to get a perfect specificity and sensitivity while working in a high-throughput context.

 

Sample identification

Our systems provide different ways to identify the samples, depending on their nature. Before capturing any image, the user identifies the samples, with GLP (Good Laboratory Practices) traceability and access rights management. Every image, capture conditions, detections or analysis, related to sample identification are stored for further retrieval, ensuring reliable and documented process. For systems equipped with a Slide Feeder Device, samples identification are performed by a bar-code reader, decreasing tedious work and error risk.

Our SmartCapture system is very adaptable, even if you have your own way to dispose your biological materials on your formats (slides, wells, pattern slides…)

The sample can be characterized by zones in cell/tissue slides or petri dishes cases, by a list of positions in micro array cases or by a list of zones in the Tissue Micro Array or well plates cases. The sample identification is user-assisted, and always custom-tailored.

 

Slide exploration

To scan the whole tissue slice at high magnification, outline (with the mouse on the screen image of the slide) the zone of interest and ask for the Defined area acquisition. Our application software does the rest, including the focusing.

Our camera image acquisition process is able to build continuous images of a sample by combining each camera viewfield. Our softwares are built to offer a handy image manipulation without overloading the computer memory capacity. Our “Virtual Slide”  memory module prevents laggy workflow when working with big sized images, especially when working on tissue section.

 

Scanning Setup

Our multi–modal acquisition protocols enable to acquire set of images of the same field with different filter sets and to acquire time-series images. Thus, selecting both time series and multi–modal gives possibility to perform dynamic double–excitation dyes fluorimetry measurments (e.g. [Ca], pH, [Na]…). The Z-Stacking acquisition function enables very high–resolution pseudo 3D imaging. Our scanning setup also include filter wheels, permitting acquisition of image series at up to four wavelengths and automatic high–speed shutter.

Our Scanning is based on a high–resolution 1300×1000 camera with 12 bit pixel depth (4096 levels) with Image readout speed up to 7 frames per second at full resolution. The camera is fully controlled by the software, enabling the control of gain, offset and exposition time on the live images.

 

Hardware parameters

IMSTAR supports wide range of analogous and digital cameras as well as microscopes, stages, filter wheels and other devices. Not willing to depend on any hardware manufacturer we developed special software architecture that permits efficient integration of new devices. We can also easily add support for virtually any equipment.

IMSTAR developped its own hardware solutions to support various uses on a single system. Our “BrightColor” device enables multicolor brightfield and fluorescence studies to be conducted on one system.

IMSTAR also developped its own automated high-throughput solutions.

 

Image Database

The IMSTAR Image Database (IDB) is well documented on its dedicated page.

Tree

All studies are sorted in the IDB tree. Multiple users on a system often means security requirement and our software offers user access rights management.

 

Mosaic

 

When the number of images in the image database is significant it may be convenient to manipulate just their subset. User can group the images into the subsets by selecting preparation or slide name(s) to be included. Once the subset is selected, a special synthetic image representing reduced views of all the images–members is generated and used later to browse the subset. This image (and sometimes the current subset corresponding to it) is the Mosaic.

 

Two types of Mosaics are available:
  • Image galleries where images are organised in 2D table
  • Metric galleries where every image is presented in the place corresponding to its position on the slide. The metric mosaic presents the entire zone of capture (histological slice, for example) as it is seen on the slide.

 Mosaic (gallery) view and handling of large (limited only by the computer storage capacity) image sets are available. This allows graphical image browsing (one–click loading, applying processing protocols to image groups…).

 

Work Image

Main image display

comet-mouse-testicle

The main window enables the user to display freely the desired image among all the databases. It also enables a visual check of detection performances. Control of gain, offset and exposition time on the live images. Possibility to track objects (cells) moving during the experiment.

 

Image enhancement


The Image Enhancement Panel allows you to change the screen image display for visual inspection and editing reports. Each colour plane can be adjusted separately by selecting the corresponding colour tab. The image is displayed at the main screen either in grey levels, one colour or full colour. The clips, visualized as the vertical red lines, give the highest and lowest grey levels displayed in the current image. To enhance the display of objects, select the corresponding colour plane, move the clips by clicking at the panel, grabbing and moving them, or by clicking on the darkest point and brightest points desired in the image and pressing Clips or by clicking Auto to let the software make the optimal adjustment.

 

Zoom


This panel allows you to significantly increase the magnification on the current image in the main view. To zoom into the sample, click “+” or grab and move the cursor or enter a data into the window. The zoomed area is shown in the zoom panel by a blue frame with indication of the zoom ratio and its pixels size. The zoomed section is displayed in the main view. The blue frame can be grabbed and moved into the entire image. Check Smooth to reduce the pixellisation that will occur at high magnification.

 

Results

Tables


The results tables are tailor-made to match your parameters quantification needs. The table summaries all the scoring for the thousands of detected objects. As we offer any number of parameters evaluated per object (i.e. cells), the tables enable a very complete and deep analysis in your studies. The tables are exportable for further statistical uses in XLS, CSV and TXT file extension.

2 kinds of tables are available, depending on the way you want to display all your data:

  • Summary tables: The data is sorted on your criteria. You might want for example to display a single ligne for a slide, a subset of slides, or to gather in one line all the data based on a criteria
  • Detailed tables: One line corresponds to a detected object (e.g. a cell)

If each table line corresponds to a cell, the software will show the corresponding cell one after another in the main window.

 

Graphs, Plots

Graphics drawing functions are available based on any of the various quantified parameters in the table.


Due to the unique structure of the IDB, it is possible to associate visual objects displayed in the main window to the corresponding lines in the table and also to the corresponding bars in the histogram. The graphs are performed either on a single experiment or on a group of experiments.


Multiple columns can be selected to draw multiple histograms.

Multiple-scatterplots are also available. There is a possibility to select a sub-population in the scatter plot for individual reviewing or other purposes.