Tutorials
Getting Started with CyteSeer Software
Custom Algorithm Pipelines in CyteSeer
CyteSeer has a very powerful custom algorithm pipeline development capability. It is a strongly typed environment that doesn't require the user to have sophisticated programming skills. It's…
CyteSeer 2 Minute Intro Video
CyteSeer Image Cytometry Software works on images from any microscope system. CyteSeer requires no drawing or tracing to identify, count and make measurements on every cell in every image. CyteSeer…
CyteSeer Cell and Tissue Measurements
This downloadable pdf is a quick reference for the measurements we currently use. We update, refine and expand…
CyteSeer Cell and Tissue Measurements
An exhaustive list of short measurement names and their expanded long names. Nuclear Ploidy Short Name <--------------> Long…
CyteSeer Quickstart
Get acquainted with Vala's CyteSeer automated cell image analysis software. More detailed information on automated cell imaging applications, kits and more powerful software techniques can be…
CyteSeer System Requirements
CyteSeer System Requirements 1 GHz processor (32- or 64-bit) 1 GB RAM (32-bit); 2 GB RAM (64-bit) 100 MB Available disk space plus additional…
How CyteSeer Works
CyteSeer software is designed to automate the analysis of images from digital microscope cameras and high-content screening analysis instruments. CyteSeer organizes your…
How to Select the Right Measurement
This lesson describes how to select the right CyteSeer measurement for your biology. CyteSeer Creates Images Masks to Identify Regions of the Cell
Install CyteSeer
What follows are detailed installation instructions for CyteSeer.
Licensing CyteSeer
CyteSeer will view images and numeric data for free, without a license. A license is only required to create masks or numerical data from your image sets. Follow these steps to license…
Manders Coeffients in CyteSeer
How CyteSeer calculates the Manders’ M1 and M2 coefficient
Opening Files in CyteSeer
CyteSeer's scalable design is evident in how it works with files. CyteSeer doesn't "open" files in the traditional sense. It looks for files of a certain format, analyses those files…
CyteSeer Examples
Analyze Beta-Catenin with CyteSeer’s Membrane Segmentation Algorithm
These pages demonstrate how to analyze beta-catenin fluorescent image – with a DAPI nuclear counterstain – using CyteSeer's membrane segmentation algorithm. Please refer to the…
Analyze ViewRNA Images With CyteSeer
A brief overview of using CyteSeer for ViewRNA Images. Setting Up CyteSeer for a Run
Count Muscle Fibers Positive for a Particular Myosin Isoform
The Image: Example Monkey Muscle Section
Finding Muscle Fibers
Automated muscle fiber image analysis using CyteSeer Original Image In CyteSeer Image Viewer
Measuring Caspase 3 Activation Using CyteSeer’s Protein Expression Algorithm
Introduction: Apoptosis is a programmed series of events that leads to the removal of old, unwanted, or damaged cells from the tissues of multicellular organisms [1]. In contrast…
PMA vs IL-8 Example: Part 1. Main Window Settings
What follows is a detailed explanation of how to generate results from CyteSeeer ViewRNA using the tutorial data for PMAvsIL-8. The images were obtained from…
PMA vs IL-8 Example: Part 2. Image Viewer
Once the initial analysis is complete, the image processing results should be inspected in the CyteSeer Image Viewer.
PMA vs IL-8 Example: Part 3. Adjust Analysis Settings
CyteSeer ViewRNA Image Viewer with Colors and Settings Dialogs Open
PMA vs IL-8 Example: Part 4. Analyze Measurements & Results
After the imaging settings have been analyzed, the work shifts to analyzing the numerical data. CyteSeer ViewRNA uses a series of numerical data files to store…
Quantify Co-labeling of Two Markers in Primary Astrocyte Cultures
This example uses CyteSeer to quantify co-labeling of two markers in primary astrocyte cultures. Each cell in the image is automatically found and measured…
RNA Spots Measurement Reference
RNA In Situ Hybridization spot measurements for use with the Affymetrix/Panomics ViewRNA Kits. This algorithm will perform well as a general FISH analysis tool. RNA Spots…
Troubleshooting
Image Merge with Free Form Naming Conventions
CyteSeer offers two distinct ways to merge images of an arbitrary file name. These naming schemes are the easiest to use because almost any name will work. Please refer to the "Generic…
Understanding the Generic Naming Convention
Most TIF images can be used as a generic naming convention for most typical fluorescence microscopy and digital camera work stations. The following instructions detail how…
Vala Forums
Vala's Forums section is another great place to request and find more information about using CyteSeer and other Vala kits in the…
