Topic · 15 posts
Micro-Manager
15 posts on Micro-Manager, 2011–2026, newest first.
Micro-Manager posts, newest first
- 01 Mar2026
Triggerscope Mini Micro-Manager Setup
Below is a short video introducing the Triggerscope Mini, as well as demonstrating how to set it up in micromanager. If you’re in a hurry, I’ve also outlined the basic steps below with screen shots. Connect the triggerscope mini to a USB-2…
ImageJMicro-ManagerNebula1 min read
- 13 Jun2017
Cooling a Pt Grey Camera
I’ve been working with Pt Grey (now FLIR) cameras for a few years now, and one nagging question in the back of my mind has been whether or not it is possible to cool them via external means. There are basically 3 categories of cooling when…
Device automationOpticssCMOS4 min read - 13 Apr2017
LED, laser, or other PWM control using Triggerscope
It appears that more and more people want to use PWM control for illumination devices from Micro-Manager and other imaging software. PWM may be used for any number of applications, from high speed pulsing of an LED, or a laser, in order to…
Micro-ManagerMicroscopesProgramming1 min read - 14 Nov2016
Pt Grey Camera Driver for MicroManager unleashes low-cost microscopy
Let’s say you want to build an imaging system, but you want to attach 2 cameras for time-correlated 2 channel imaging. The limiting factor for such an arrangement is usually cost, that cost being $10,000 USD per camera means $20,000 for…
ImagingMicro-Manager4 min read - 05 Jun2016
Shutter Configuration of TTL devices in Micromanager
I made this video to show how to use both a state device shutter object and a group shutter object in micro-manager. Hopefully others can make use of it!
ImagingMicro-ManagerMicroscopes1 min read - 01 Apr2016
Automated Capture and Save script for Micro-Manager
I wrote this for a client, but figured others could make use of it. This code simply captures a number of images as defined by the user, and saves them to the specified folder without displaying them. This is useful if you don’t want all…
ImageJImagingMacros1 min read
- 16 Nov2015
Triggerscope & Micro-Manager Demo LED
With ASCB right around the corner, I’ve been looking for opportunities to showcase the controller, so I’m happy and grateful to announce that the TriggerScope16 will be demonstrated at the Open-Imaging Micro-Manager booth (#1312) this…
Micro-ManagerMicroscopesTriggerscope1 min read - 17 Sep2015
Acquisition Speed Comparison of MetaMorph, NIS Elements, Micro-Manager
How fast can a typical imaging system really run? What factors affect this? While most research might not require rapid sequential capture, almost all experiments can benefiet from tight exposure/illumination timing, yet few microscope…
ArduinoDevice automationNIS-Elements3 min read
- 29 Feb2012
ImageJ Counting Macro for Known Field Values
Here’s a simple method to deal with varying intensities in a large run of images, assuming you have a known number of cells in a field. If I assume I should see, say, more than X cells per area, I can adjust my threshold to slowly increase…
ImageJImagingMacros1 min read - 07 Nov2011
WHY YOU SHOULD ATTEND THE UCSF/QB3 Microscopy Course
Over the course of my career, I’ve flown across the US to attend a variety of imaging related instructional courses, all on the eastern seaboard. We are all familiar with the Woods Hole courses, the AQLM course, and so forth. What has…
NIS-ElementsImageJImaging1 min read - 12 Sep2011
Updating Software? A pre-chaos checklist…
A few years after your shiny new system is installed, you’ll inevitably look at it just like you look at a car. What was once running flawlessly now has a few bugs, some dust, is slower and generally worn in. So, at some point you’ll…
NIS-ElementsImageJMicro-Manager5 min read - 23 May2011
Acquisition crashes, and power settings in Win7
Windows 7 has a new power management interface, and the design of modern motherboards, along with win7 Automatic Power Management (APM), can cause some insidious device-based software crashes if power options aren’t set correctly. Here’s…
Device automationNIS-ElementsImageJ1 min read
- 29 Apr2011
Voltage output from NIS Elements, MetaMorph or uManager for under $200
I posted briefly about this a while back, in my explanation of the demise of the parallel port. I finally got my hands on a National Instruments USB-6008 box, and have found the unit to be 100% compatible with any NI-DAQ controlling…
Device automationNIS-ElementsImageJ2 min read
- 29 Mar2011
Determining background sources in fluorescence
For microscopy engineers and suppliers like me, the background produced in an image is of importance, if that background is created by the imaging system itself. What so many of us on this side of the scope (vs the user side) forget to…
NIS-ElementsImageJImaging2 min read
- 11 Feb2011
*UPDATED* Micro-Manager Tethered to a Nikon Digital SLR
***UPDATE 3/3/2014*** After a few requests for a report on x64 capability using this tethering technique, I tried installing the NK Remote software on a rather fresh copy of Windows 7×64 – it did not communicate with the camera at all. On…
Device automationDSLR CamerasNIS-Elements3 min read