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--- other:inspect3d:tutorials:treadmill_walking_in_healthy_individuals [2025/01/20 19:01] – [Abstract] wikisysop
+++ other:inspect3d:tutorials:treadmill_walking_in_healthy_individuals [2025/01/20 19:58] (current) – [Visual3D Processing] wikisysop
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 Visual3D and Inspect3D can be used to automate the processing of large batches of clinical data. This tutorial provides an example of how to do so using a publicly available data set.
-[[https://peerj.com/articles/4640/|Fukuchi et al. [1]] published a gold standard public data set available [[https://figshare.com/articles/dataset/A_public_data_set_of_overground_and_treadmill_walking_kinematics_and_kinetics_of_healthy_individuals/5722711|[here [2]]]] of marker-based motion capture to describe healthy individuals walking overground and on a treadmill. Although the authors present a number of descriptive analyses, the effect of using handrail support on gait biomechanics during treadmill walking in this data set has yet to be addressed.
+[[https://peerj.com/articles/4640/|Fukuchi et al. [1]]] published a gold standard public data set available [[https://figshare.com/articles/dataset/A_public_data_set_of_overground_and_treadmill_walking_kinematics_and_kinetics_of_healthy_individuals/5722711|here [2]]] of marker-based motion capture to describe healthy individuals walking overground and on a treadmill. Although the authors present a number of descriptive analyses, the effect of using handrail support on gait biomechanics during treadmill walking in this data set has yet to be addressed.
 This tutorial is designed to demonstrate how to use Inspect3D to compare joint angles between two groups of older adults: those who used a handrail and those who did not.
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 {{ :Intro1.jpg}}
-The Fukuchi et al. data set includes 3D kinematic data for 26 lower limb and pelvic markers and ground reaction force plate data for 42 subjects walking at 8 different speeds. Motion capture data was sampled at 150 Hz and force plate data was sampled at 300 Hz. Metadata in these trials included anthropometric measurements such as mass, height, leg length, leg dominance, gender, handrail support, and walking speed. For this tutorial only a subset of the data was used, which included the trials with older adults (subjects aged 25-42) walking at a single comfortable control speed (T05).
+The Fukuchi et al. data set includes 3D kinematic data for 26 lower limb and pelvic markers, and ground reaction force plate data for 42 subjects walking at 8 different speeds. Motion capture data was sampled at 150 Hz and force plate data was sampled at 300 Hz. Metadata in these trials included anthropometric measurements such as mass, height, leg length, leg dominance, gender, handrail support, and walking speed. For this tutorial only a subset of the data was used, which included the trials with older adults (subjects aged 25-42) walking at a single comfortable control speed (T05).
   * **Fukuchi et. al. subject data:** From the publicly available data files, download WBDSc3d.zip for subject .c3d files, and WBDSinfo.xlsx for the metadata [[https://figshare.com/articles/dataset/A_public_data_set_of_overground_and_treadmill_walking_kinematics_and_kinetics_of_healthy_individuals/5722711|[3]]]
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 ==== Visual3D Processing ====
+This tutorial will be started by processing the raw data provided by Fukuchi et al. using the Visual3D Pipeline feature.
-If you want to skip to the Inspect3D analysis portion of this tutorial, ensure you have downloaded the **"I3D_Tutorial_Treadmill_Walking.zip"** folder and then skip to the header called **Loading Data into Inspect3D**. If you want to use or modify the pre-made pipeline, continue with the steps below. You also need to have downloaded the original data from Fukuchi et al.[[https://peerj.com/articles/4640/|[4]]]
+If you want to skip to the Inspect3D analysis portion of this tutorial, ensure that you have downloaded the **"I3D_Tutorial_Treadmill_Walking.zip"** folder and then skip to the header called **Loading Data into Inspect3D**. If you want to use or modify the pre-made pipeline, continue with the steps below. You also need to have downloaded the original data from Fukuchi et al.[[https://peerj.com/articles/4640/|[4]]]
-This tutorial uses the Pipeline feature of Visual3D to process the raw data provided by Fukuchi et al. The benefit of the pipeline feature is that it can be used to automate repeated steps and reduces the amount of time it takes to work with large data sets. If you are unfamiliar with using the Visual3D workspace, take some time to review the [[visual3d:tutorials:knowledge_discovery:typical_processing_session|Typical Processing Session Tutorial]] and the [[visual3d:tutorials:pipeline:command_pipeline|Command Pipeline Tutorial]].
+The benefit of the pipeline feature is that it can be used to automate repeated steps and reduces the amount of time it takes to work with large data sets. If you are unfamiliar with using the Visual3D workspace, take some time to review the [[visual3d:tutorials:knowledge_discovery:typical_processing_session|Typical Processing Session Tutorial]] and the [[visual3d:tutorials:pipeline:command_pipeline|Command Pipeline Tutorial]].
-{{ :processing1.png }}
+We can now begin the tutorial:
 **1. Download .c3d files**
 Fukuchi et al. has a folder labelled **WBDSc3dWithGaitEvents**, ensure that you are using the .c3d files contained in this folder.
+**NOTE:** The processed data files after the Visual3D processing are available in the **I3D_Tutorial_Treadmill_Walking.zip** for you to use in the Inspect3D portion of the tutorial.
 **2. Subject by Subject Pipeline Edits**
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 {{ :LoadingData2.png }}
-  - Select {{:I3DLoadLibrary.png?20}} **Load Library** and set **CMO Library Path** to the folder where your .cmz and .c3d files are located. Ensure you are using the files from the **WBDSc3dWithGaitEvents** folder. Then select **Load** and exit the window.
+  - Select {{:I3DLoadLibrary.png?20}} **Load Library** and select browse to set the file path to the folder where your .cmz and .c3d files are located. Ensure you are using the files from the **processed_workspaces** folder. Then select **Load** and exit the window.
   - Open the {{:I3DGroups.png?20}}**Group Definitions** tab and select {{:I3DOpenGroupDef.png?20}}**Load Group Definitions**. Once prompted, open the **group_definitions.q3d** query file.
   - Select **Calculate All Groups**. Groups will be divided up based on right and left pelvis, hip, knee and ankle joint angles in x, y, and z axis.