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Pre-preprint: blogging a project

SLAB is trying something new with one project in the lab. Prior to drafting a preprint, we’re blogging the project and sharing the results and analysis. We invite anyone to comment on the work.

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Allen Institute’s Brain Observatory data set

The Allen Institute has released the first set of data from their Brain Observatory project. Many of you already know about this, but I wanted to post about it to encourage people to take a bit of time to check out the data set themselves. They have a github page with materials that can help

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Tons of 2p spectra – twophotondyes.com

  Daniel Fiole is curating a nice resource for 2p cross sections: twophotondyes.com There’s a lot here. It’s not just dyes, he has links for fluorescent proteins as well, and there’s 3p data linked to as well: Prior posts on 2p cross sections:  

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ReSpeaker – Funded, still-available kickstarter for adding voice control to your project

In an earlier post, we discussed how surprisingly useful well designed voice control can be. There are open source software solutions for voice control, but they aren’t integrated with hardware, and there wasn’t really a kit to help one get started. Now there is. Here’s an open source kit for adding voice control to whatever

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SLAB is hiring postdocs – neurobiologists and engineers

Just a reminder to anyone looking for a postdoc position: check out the “Now Hiring” link above. We’re looking for people who are pure neurobiologists, pure engineers, or any mixture of the two. Graduate students that are interested in the lab are also encouraged to contact us, especially if they might be graduating soon. We

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Checking PMT performance over time

PMT performance can degrade over time. A friend asked mine recently ask for suggestions on how to check PMT performance. In a prior post, I mentioned that the Hamamatsu PMT Handbook talks a bit about the proper way to make calibrated measurements of PMT sensitivity. If you don’t need calibrated numbers, and just want to

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H.G. Wells and tissue clearing

This passage from H. G. Wells’ The Invisible Man (1897) is an interesting way to introduce the concept of index-matching for tissue clearing. By making sure all of the material interfaces (e.g., lipids, intracellular solutions, and extracellular solution) have the same index-of-refraction, one can render a body transparent. And here is another fact you will

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Postdoc opening in Paris, Schmidt-Hieber lab

Christoph Schmidt-Hieber’s new lab at the Pasteur in Paris will open later this year and he has an opening for a postdoc to study neural circuits for navigation and memory. Labrigger has covered Christoph’s open source work before, on mouse VR and electrophysiology. Here is a link to that part of his web page.

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SpikeGadgets extracellular recording and open source software

SpikeGadgets makes hardware and software for extracellular array recording. They make nice looking hardware, both for recording from arrays, and for controlling experiments. They sell a few accessories as well, including this commutator. Their software is open source. MATLAB and Python code is also part of the project. The company’s run by Mattias Karlsson (worked

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Uniqb – construction system

Tibbo, whose microcontrollers were just mentioned here, also sells a construction system called Uniqb. It’s a bit like MakerBeam (it and another system, OpenBeam, are available on Amazon). Store Blog

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Tibbo Project System – modular microcontroller

Tibbo makes modular microcontrollers, with plug-in modules for I/O ports (e.g. DB9), relays, sensors, digitizers, etc. They have different sizes, the largest of which is available as a Linux version.

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Ripple noise on PMTs in 2-photon imaging – Part 2

The recent post on ripple noise generated some comments and additional discussion. Go check out the comments on that post. For example, Peter Rupprecht shared some snapshots an oscilloscope display showing the signal from the BNC connector at the back of the laser, in the presence of this ripple noise. The ripple is seen when

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Ripple noise on PMTs in 2-photon imaging

Andrew Lim wrote in to discuss strategies on dealing with ripple noise in 2-photon imaging systems, particularly when using resonant scanners. He writes: This isn’t so much a tip as a problem with resonant two-photon scopes that several people have told me they also have but I haven’t seen a solution for (other people apparently

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Postdoc position with Duguid in Edinburgh

A world-class in vivo patch clamp electrophysiologist, Ian Duguid, is recruiting to his lab. Ian provides excellent training, and his lab is in a tremendous setting: Edinburgh. Ian’s also one of the current leaders of the famous CSHL Ion Channels course. By the way, his web site also has some interesting machine drawings and other

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Sanworks’ open source behavior devices and pulse generator

Sanworks has a whole series of devices for behavior experiments. Everything is open source and well documented. You can also pay them to assemble the devices if you choose. They have also created a pulse generator called the PulsePal, and Arduino Due-powered device offering 2 trigger channels and 4 output channels (minimum pulse width 100

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