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Ricardo Henriques
Works at University College London
Lives in London, UK
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Ricardo Henriques

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Subhajit Das originally shared to Science on Google+ (​​​​​​​​​Earth):
 
The most intelligent & fatal virus till now.......
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For a non-sports person, this is sorta what it's like to be on the internet today. 
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+Stephan Preibisch  just posted a series of YouTube movies on the results of his multi-view deconvolution for SPIM data. Here is an example, but for more, check his paper and his YouTube page (https://www.youtube.com/channel/UCUOeVtJdFsOddNJCZGmgm3g).

The raw image data is acquired on a SPIM, which is a novel imaging technique now very popular and exists in commercial instances. It changes a bit from your typical microscope design: the sample is illuminated from the sides, using one or several light sheets that slice through the sample. It proved to be able to image very quickly large volumes of a sample with very little phototoxic impact, allowing to gather several TB of data for a single sample followed over days at high temporal resolution. But this is another problem. :)

One particular thing about the SPIM is that the sample is rotated several times, so that the illumination accesses almost all the parts of a possibly large sample. So at each timepoint, you have several views of the sample. You must therefore fuse these views together, so as to rebuild the whole volume with the best quality in all views.

The problem with fusion is that it tends to strongly degrade the image sharpness: You get the sample illuminated everywhere with the same intensity, but you also get the worst crispness of all views (this is a blunt and inaccurate explanation, see the paper for details).

Stephan Preibisch's multiview deconvolution solves this problem and offers a terrific image quality, both in intensity and sharpness. Just look at the videos: You get access to sub-cellular details in a whole organism, which was not possible with the plain fusion. Multi view deconvolution now yields the state of the art in SPIM.
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Probably the slowest thing ever, but still, pretty cool.
 
Raspberry Pi 64-Node Supercomputer with LEGO
http://adafru.it/b98686

A team of engineers from University of Southampton have made this incredible 64-node supercomputer with Raspberry Pis and LEGO. The video above shows how they did it and you can access the full tutorial here.

Computational Engineers at the University of Southampton have built a supercomputer from 64 Raspberry Pi computers and Lego.

The team, led by Professor Simon Cox, consisted of Richard Boardman, Andy Everett, Steven Johnston, Gereon Kaiping, Neil O’Brien, Mark Scott and Oz Parchment, along with Professor Cox’s son James Cox (aged 6) who provided specialist support on Lego and system testing.

Professor Cox comments: “As soon as we were able to source sufficient Raspberry Pi computers we wanted to see if it was possible to link them together into a supercomputer. We installed and built all of the necessary software on the Pi starting from a standard Debian Wheezy system image and we have published a guide so you can build your own supercomputer.”

Read morehttp://adafru.it/b98686 #piday #raspberrypi
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Image: Women Rock Science
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For the first time, neuroscientists have systematically identified the white matter 'scaffold' of the human #brain, the critical communications network that supports brain function. The research is described in this original research article from Frontiers in Human #Neurosciencehttp://bit.ly/M8QurC

The work has major implications for understanding brain injury and disease by showing which connections may be most vulnerable to damage.
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Physics is Fun:
What is the Physical Explanation of the Image?
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Today, the ImageJ and KNIME teams are pleased to announce ImageJ OPS: a framework for reusable image processing operations. This library is the direct result of an extremely successful hackathon hosted by Michael Berthold's team at the University of Konstanz, Germany.

The ImageJ2 vision is to extend Java's mantra of "write once, run anywhere" to image processing algorithms. With that goal at its heart, ImageJ2 introduces extensible plugin and module frameworks which make ImageJ commands richer, more powerful and easier to share across applications. Already, these modules are accessible from CellProfiler, KNIME, OMERO and Alida.

But still notably missing was the next crucial layer: a framework for image processing specifically. To address that, we set out to create a framework for reusable image processing algorithms, with three main qualities: 1) easy to use and extend; 2) powerful and general; and 3) very fast. The usual rule of thumb in software is “pick two” of those. Yet we are happy to say that we believe OPS strikes a favorable balance between all three criteria.

Read the full announcement, including examples of usage, at:
  http://developer.imagej.net/2014/04/04/announcing-imagej-ops

We sincerely hope that the OPS project will make it much easier for various software tools (e.g.: KNIME, CellProfiler, OMERO, Alida, Icy, Vaa3D and of course ImageJ itself) to provide drop-in support for ImageJ's image processing operations, allowing scientists to truly "write once, run anywhere" and share with the world!
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Ricardo Henriques

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Raspberry Pi 64-Node Supercomputer with LEGO
http://adafru.it/b98686

A team of engineers from University of Southampton have made this incredible 64-node supercomputer with Raspberry Pis and LEGO. The video above shows how they did it and you can access the full tutorial here.

Computational Engineers at the University of Southampton have built a supercomputer from 64 Raspberry Pi computers and Lego.

The team, led by Professor Simon Cox, consisted of Richard Boardman, Andy Everett, Steven Johnston, Gereon Kaiping, Neil O’Brien, Mark Scott and Oz Parchment, along with Professor Cox’s son James Cox (aged 6) who provided specialist support on Lego and system testing.

Professor Cox comments: “As soon as we were able to source sufficient Raspberry Pi computers we wanted to see if it was possible to link them together into a supercomputer. We installed and built all of the necessary software on the Pi starting from a standard Debian Wheezy system image and we have published a guide so you can build your own supercomputer.”

Read morehttp://adafru.it/b98686 #piday #raspberrypi
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Nana nana nana batgirl
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In his circles
79 people
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69 people
ImageJ's profile photo
Florian Mueller's profile photo
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Liu Quan's profile photo
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Luis Pedro Coelho's profile photo
Edgar Felizardo's profile photo
Vanessa Carlos's profile photo
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Basic Information
Gender
Male
Other names
José dos Santos Duarte Vieira
Work
Occupation
Senior Lecturer / Research Group Leader
Skills
Optical Physics, Cell Biology, Nano Biophysics
Employment
  • University College London
    present
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Map of the places this user has livedMap of the places this user has livedMap of the places this user has lived
Currently
London, UK
Previously
Paris, France - Lisbon, Portugal - Pretoria, South Africa
Friendly people. Excellent support and communication. Bought a bike and some equipment, they took the time to make sure I was happy and knew everything about what I was getting.
Public - a year ago
reviewed a year ago
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