-
To be able to load complex morphologies and also for the sake of exploring the connectivity aspects between the different branches of the morphology, we need to add an option to draw only the terminal…
-
When I select to show only somas and play around with the graphics (work Linux box Ubuntu 16.04), then sometimes the app crashes and I have an error like follows:
```
terminate called after throw…
-
I've used proseg to segment several xenium datasets and each time I see squares in the distribution of transcripts and genes. These seem to follow the fov boundaries but I don't understand why cells a…
-
Tracking is the most time-consuming aspect of BEMOVI so far. To cut time down for tracking, pre-filtering on the raw coordinates may be helpful: for instance, morphologies far outside the range encoun…
-
- [ ] **??? graphical abstract**
- [ ] **reference vs. upscaled model: sketches and parameters**
- see arxiv Fig 1
- [x] A: replace sketches by simplified ones
- B: decide for most striking …
-
I've used Limeseg successfully for hundreds of cylindrical/disk-like cells, but I am having issues segmenting cells with stranger morphologies (for our cells). This cell has a rod-like head with a ver…
-
```
Fibers currently being drawn with cylinders. Should draw them using the same
geometry instancing tricks we are using for neuron morphologies. This is
related to issue 211
```
Original issue …
-
Hello,
when I try to run your code with the default arguments:
`python main.py --expID 004 --td --bu --morphologies hopper`
I get the following error:
` raise error.NameNotFound(message)
g…
-
Some softwares (e.g. https://alleninstitute.org/what-we-do/brain-science/research/products-tools/vaa3d/) might create SWC files with less restrictive specs (e.g. a root ID that is not equal to -1, see…
-
Fine-graining is not implemented for system sized morphologies. It would be a good proof of concept to show that we can take a UA trajectory, add hydrogens, and run the relaxation workflow Matty descr…