So things have not really worked out as hoped since the last update. We had a productive time commissioning @bengtsjolen’s machine in Berlin in January, but since then I’ve had other obligations and now COVID-19 has made it impossible to visit Berlin.
However I have been thinking about how to continue and especially how to accelerate development once I can access a HiSeq again.
I’d like to change course and make sure to re-use and contribute back towards @kpandit 's python module. The main reason Micromanager is so appealing is that we get a GUI, features like auto-focus and scripting. Today my colleague here at the Uni of Bath gave a presentation about the work he’s been doing to generalise the Openflexure microscope client which made me think we should use a fork/adaptation of this as our GUI and high-level scripting interface.
It definitely has less features and is less mature than Micromanager but on the other hand it’s much more adaptable and hackable.
See here to get an idea of what the client looks like:
The nascent standardisation effort around it is called Labthings:
Budget & aquiring a machine in the UK
I’ve updated the budget and we currently have CHF 5693.74 remaining. Since we haven’t been so lucky as to be donated a machine in the UK yet. I wanted to gauge people’s opinion on using around CHF 1300 or so to buy one. Here is a poll:
- Buy a HiSeq for around CHF 1300 in the UK.
- No, save the money and travel to Berlin when flights resume.
Cheers, everyone. Stay safe.