If you’ve spent much time looking through a microscope, you know that their narrow depth of field can be a bit challenging to deal with. Most microscopes are designed to only have a very thin slice of the specimen in focus, so looking at anything above or below that plane requires a focus adjustment. It’s tedious and fussy, and that makes it a perfect target for automation.

The goal behind [ItMightBeWorse]’s microscope mods is “focus stacking,” a technique where multiple images of the same sample taken at different focal planes can be stitched together so that everything appears to be in focus. Rather than twist knobs and take pictures manually, he built a simpler Arduino-based rig to do the job for him. Focus control is through a small stepper motor connected to the fine focus knob of the scope, while the DSLR camera shutter is triggered through a simple relay board. There’s also lighting control, with an RGB LED ring light that can change both the light level on the sample as well as the tint.

The code is very simple, and the setup is quite temporary looking, but the results are pretty impressive. We could do without the extreme closeup of that tick — nasty little arachnids — but the ant at the end of the video below has some interesting details. [ItMightBeWorse] doesn’t mention how the actual stacking is being done, but this CNC-based focus stacking project mentions a few utilities that take help with the post-processing.

[Philip Nicovich] has been building laser sequencers over at the University of New South Wales. His platform is used to sequence laser excitation on his fluorescence microscopy systems. In [Philip]’s case, these systems are used for super-resolution microscopy, that is breaking the diffraction limit allowing the imaging of structures of only a few nanometers (1 millionth of a millimeter) in size.

Using an Arduino shield he designed in Eagle, [Philip] was able to build the system for less than half the cost of a commercial platform.

The control system is build around the simple Arduino shield shown to the right, which uses simple 74 series logic to send TTL control signals to the laser diodes used in his rig. The Arduino runs code which allows laser firing sequences to be programmed and executed.

[Philip] also provides scripts which show how the Arduino can be interfaced with the open source micro manager control software.

As well as the schematics [Philip] has provided STEP files and drawings for the enclosure and mounts used in the system and a detailed BOM.

More useful than all this perhaps is the comprehensive write-up he provides. This describes the motivation for decisions such as the use of aluminum over steel due to its ability to transfer heat more effectively, and not to use thermal paste due to out-gassing.

While I can almost hear the cries of “not a hack”, the growing use of open source platforms and tool in academia fills us with joy. Thanks for the write-up [Philip] we look forward to hearing more about your laser systems in the future!

[Philip Nicovich] has been building laser sequencers over at the University of New South Wales. His platform is used to sequence laser excitation on his fluorescence microscopy systems. In [Philip]’s case, these systems are used for super-resolution microscopy, that is breaking the diffraction limit allowing the imaging of structures of only a few nanometers (1 millionth of a millimeter) in size.

Using an Arduino shield he designed in Eagle, [Philip] was able to build the system for less than half the cost of a commercial platform.

The control system is build around the simple Arduino shield shown to the right, which uses simple 74 series logic to send TTL control signals to the laser diodes used in his rig. The Arduino runs code which allows laser firing sequences to be programmed and executed.

[Philip] also provides scripts which show how the Arduino can be interfaced with the open source micro manager control software.

As well as the schematics [Philip] has provided STEP files and drawings for the enclosure and mounts used in the system and a detailed BOM.

More useful than all this perhaps is the comprehensive write-up he provides. This describes the motivation for decisions such as the use of aluminum over steel due to its ability to transfer heat more effectively, and not to use thermal paste due to out-gassing.

While I can almost hear the cries of “not a hack”, the growing use of open source platforms and tool in academia fills us with joy. Thanks for the write-up [Philip] we look forward to hearing more about your laser systems in the future!