Pipsqueak Basic

Perineuronal net Intensity Program for the Standardization and Quantification of ECM Analysis

For description of protocol, see:

Please cite Slaker, Harkness, and Sorg (2016) when using the Pipsqueak macro. (PDF here.)

• Slaker M, Harkness JH, and Sorg BA. A standardized and automated method of perineuronal net analysis using Wisteria floribunda agglutinin staining intensity, IBRO Reports, 2016

You can download Pipsqueak lite from ImageJ by adding our repository to your FIJI Update Sites.

Thank you for support from:

Rewire Neuroscience (rewireneuroscience.com)
WSU Alcohol and Drug Abuse Research Program (ADARP)
The Translational Addiction Research Center (TARC)
NIH DA 033404
Washington State Initiative Measure No. 171
NIH R43GM134789-01 (NIGMS SBIR Phase I)
State of Oregon SBIR matching grant
and…

To install Pipsqueak (AI or Basic):

PIPSQUEAK can be run on either FIJI or ImageJ, but to receive automatic updates to the macro, you must use FIJI and add PIPSQUEAK to your FIJI Update Sites. To do this, follow the instructions below. To use ImageJ, you will have to download and install PIPSQUEAK manually.

• Open FIJI (or download it here: https://fiji.sc ).
• Download Pipsqueak AI Advanced
• Move the download to your Fiji.app folder (Video bookmarks: Mac OS, Win)
• Extract files to …/Fiji.app/

Reopen FIJI and start Pipsqueak AI right from the menu!

Pipsqueak practice double labeled image set, and results (in an excel template sheet for column sorting)

About Pipsqueak Basic

Instructional videos:

• Installation

• Settings, Features, and Setup

• Image Scale Determination

• Single-Label and Double-Label Analysis

• Triple-Label Analysis!