open-worm-analysis-toolbox
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openworm
A testing pipeline that allows us to run a behavioural phenotyping of our virtual worm running the same test statistics the Schafer Lab used on their worm data.
As I am debugging the specifications one thing that is constantly coming up is discrepancies between how the features are described in the CSV files that the Specs class uses...
Hello, I was trying to use code; ``` import open_worm_analysis_toolbox as mv bw = mv.BasicWorm.from_schafer_file_factory("example_contour_and_skeleton_info.mat") nw = mv.NormalizedWorm.from_BasicWorm_factory(bw) wp = mv.NormalizedWormPlottable(nw, interactive=False) wp.show() wf = `mv.WormFeatures(nw) ``` but, the error...
Hello, I have installed OWAT on my computer and configured by following the instruction. I have also downloaded the example data from Google Drive. The tools/test_setup.py can run without any...
This is probably a good thing to have - the inclusion of our tools and capabilities in OpenWorm's main Docker image repo where we point users to use/demo our functioning...
I suggested this in #general and @gidili liked the idea. ChannelWorm2 has an analogous graphic and I'm issuing pull requests across the various repos.
Getting OWAT to, in a user friendly way, go from WCON to features.
Hello, I am trying to use open worm analysis toolbox by using python 3.6 ver. I installed this toolbox using pip3 and successfully installed this toolbox. However, when I tried...
Hello, I am trying to use this analysis toolbox. I have followed by the instruction as described in README.md. Then I found that the the file example_contour_and_skeleton_info.mat is missing to...
https://github.com/openworm/open-worm-analysis-toolbox/blob/master/examples/WCON%20demo.py
From @ver228 > A quick question. I am documenting the features however I found in this document ( https://github.com/openworm/open-worm-analysis-toolbox/blob/master/documentation/database%20schema/Features%20Specifications.xlsx) that locomotion.foraging_bends.amplitude should have units of micrometers. > > However, for...