This plugin allows to import raw .pt3 files from Picoquant Symphotime software (v5.3) for further manipulation and analysis under ImageJ.


François Waharte, PICT-IBiSA, Institut Curie - CNRS Paris (France). Francois.Waharte at


Import multi-channel Picoquant .pt3 files Creates 1 stack for each channel.


How to use it: simply select your .pt3 file and you will get an image stack for each channel containing data (1 to 4), named Data Ch1-4.

The Image info will contain some information about the TCSPC acquisition as shown on the screenshot below.

Warning: this can generate BIG stacks (~ 1 Gb each), so set the memory to a high enough value in Edit/Options/Memory&Threads !


Download Pt3Reader_.class to the Plugins folder of ImageJ, restart ImageJ and use the “Pt3Reader” command in the Plugins menu.


Plugin is available here:pt3reader4_.class

You can also download the source code:


This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see

Copyright (C) 2016 François Waharte


June 7th, 2016: Uses folder preferences to avoid nervous breakdown when you have to find your data folder every time you use it !

May 18th 2016: modified windows name by taking the filename + C1, C2, C3, C4 depending on the channel.

March 23rd, 2016: initial submission

plugin/inputoutput/picoquant_.pt3_image_reader/start.txt · Last modified: 2016/06/07 12:31 by waharte
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