Flywire to natverse

[Li Guo]

Hi all,

I am wondering if the Flywire data (for example, the neuron ID) can be read directly to natverse? And Our lab is considering to buy a new computer on EM and natverse. Do you have any suggestions on the Graphic and memory setting?

Bests

Li

[Gregory Jefferis]

Dear Li Guo,

Many thanks for your interest in the natverse. For flywire it is possible to use the fafbseg package to read 3D meshes directly. 

https://github.com/natverse/fafbseg

If you read down the readme there is an example for flywire. 

The setup is a little fiddly still because it actually depends on a separate python installation of the cloudvolume python library developed by Will Silversmith in the Seung lab, but instructions are given when you try to use the functions. Although the natverse (like R) is cross-platform this new functionality is being developed and tested first on Mac and Linux rather than Windows and you will likely find the install easier on those 2 platforms. 

In terms of hardware recommendations, it depends a lot on exactly what you are doing but if I were buying a new machine, I would probably buy a Linux desktop or a Mac laptop w 32 (pref 64GB) RAM, >=1TB SSD and >=6 cores. If you want to do a lot of NBLAST, then aim for 10-12 cores as it can be parallelised. You could ask the flywire people if there are any special recommendations for graphics cards for neuroglancer + webgl on Linux but I imagine you should be fine with most recent gaming cards. I would imagine if you spend >=$250 on an nvidia card you will get very good graphics performance. 

All the best,

Greg. 

Sent from my iPhone

On 11 Jul 2020, at 00:52, Li Guo <li_...@ucsb.edu> wrote:

Hi all,

I am wondering if the Flywire data (for example, the neuron ID) can be read directly to natverse? And Our lab is considering to buy a new computer on EM and natverse. Do you have any suggestions on the Graphic and memory setting?

Bests

Li

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[Li Guo]

Thanks! I will check with FLywire people!

[Li Guo]

Thanks! I will check with flywire people!

Bests

Li