Posted on Dec 15, 2016 UTC by inkycatz

Exciting news today, we have chat! Included in our updates to stability and performance of consensus, we also brought along our chat system, which was first developed during Nanocrafter development.

Keep in mind that chat is generally moderated, and if you haven’t checked out our Community Guidelines, you’ll be expected to have done so. We welcome your suggestions on how to improve the chat experience on the forums, which you can get to by pressing “Community” on the menu above. Please send chat bugs to the bug forum, and suggestions/feature requests straight to General Discussion. Also note you need a registered account to chat.

Come on by and say hi.

As always you can also visit the changelog in our forum for the basic version of updates.

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Posted on Dec 14, 2016 UTC by inkycatz

Excellent news today regarding challenge 04: Mouse V1 - we’re done!

According to our collaborating scientists, this cell is already complete. The reason this was so fast is that there is only one short segment of axon, or what neuroscientists would consider a “dendrites-only” reconstruction. Not only that but scientist “alexh” was able to compare to the gold standard just from the web view and let us know the consensus is essentially identical to the gold standard. He estimated he would be able to take the consensus and turn it into gold standard quality in about 10 minutes.

This is very impressive work and definitely something to celebrate. Great work, everyone!

Are you ready for more? Go here to get started on our next challenge: Mouse-V1-05.

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Posted on Dec 13, 2016 UTC by inkycatz

Hello community!

Allen Institute for Brain Science scientist “Alexh” compiled some thoughts on puzzle 03: Mouse V1, and here they are:

The biggest difference between this cell and the last was the lack of false positives. There was a bit of stuff around the soma, but very little. More importantly, I did not see any false branches (maybe a couple of very short ones)!

The dendrites are approximately 95% captured. There is one dendritic branch that was missed because it is very faint. One dendritic tip was missed because it had an abrupt change of direction; abrupt changes of direction are challenging to catch. There was also some tracing inaccuracy occuring because the dendrites cross each other very closely. Here is a screenshot, gold standard in blue, Mozak community consensus in pink:

The end of one dendrite was improperly continued on the branch of another dendrite. This can occur when branches cross each other very closely. One way to minimize this happening is to take some time and scan back and forth in the single plane view until you feel super confident in moving on.

Around 75% of the axon was captured this time, but even so, it was often discontinuous. The only completely missed axon branches were near the soma, which is usually a zone of lower signal-to-noise. This makes it easier to miss faint axons.

Overall, I thought this was a very good representation of the cell!

Now it is time for us to tackle a new challenge. Go here to get started.

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Posted on Dec 12, 2016 UTC by inkycatz

Today, we have a different mouse neuron from the primary visual cortex. Thank you to our scientist collaborators at the Allen Institute for Brain Science for providing this challenge for our community. You can click right here to get started!

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