Vasudev Sharma
Vasudev Sharma
When we wish to write a custom script to lets say perform either segmentation or morphometrics extraction as a subtask, the python process exits due to the `exit()` calls https://github.com/neuropoly/axondeepseg/blob/6cc6ade5f8aa594a66ddec556f08ab15501d12d3/AxonDeepSeg/morphometrics/launch_morphometrics_computation.py#L150...
Recently, I updated my Mac OS from Mojave(10.14.6) to Mac OS Big Sur (11.4). In doing so, I am unable to open FSLeyes in AxonDeepSeg I get the following OpenGL...
The PR #501 implements the inner perimeter (axon perimeter) and outer perimeter(axonmyelin perimeter) of the myelin and validates it for a circle using a simulated image. However, in this recently...
## **Describe the bug** To test Stoyan's PR #490 on a Linux machine with GPU access, I tried installing ADS on that machine. While doing so, I encountered an installation...
This issue aims to list the discussions in PR #399 (see [here](https://github.com/neuropoly/axondeepseg/pull/399#discussion_r530437803)) regarding refactoring of `compute_mophometrics.py` script. In the PR #399, we introduced an additional method of computing the diameter...
There are some locations in the codebase such as look at [here ](https://github.com/vs74/axondeepseg/blob/c7b0aee2bc45a700963fc08a0f806931e56deec4/AxonDeepSeg/segment.py#L27) where hardcoded variables are used. Instead, we should centralize all the hardcoded variables in the [config.py](https://github.com/neuropoly/axondeepseg/blob/master/config.py) script.
As mentioned in the last meeting, I was investigating transfer learning on Simeon's data. For that, I used pretrained weights of our `default_TEM_model` hosted in OSF as our starting point....
Currently, the documentations only lists out detailed instructions on how to use `axondeepseg` and `axondeepseg_test` CLI. The documentation seems to be lacking the instructions about the remaining CLI's that we...
As of now, the current [references](https://github.com/neuropoly/axondeepseg#references) section (**README.md**) is not updated/maintained. Although there are a lot more citiations for ADS, the [**README.md** ](https://github.com/neuropoly/axondeepseg#references)file only lists a fraction of them. Do...
**PAPER : -** [Transfer Learning Framework for cell segmentation with incorporation of geometric features .pdf](https://github.com/neuropoly/axondeepseg/files/5724866/Transfer.Learning.Framework.for.cell.segmentation.with.incorporation.of.geometric.features.pdf) There are three key insights from this paper we would like to test and if...