Ecosyste.ms: Awesome
An open API service indexing awesome lists of open source software.
https://github.com/bhklab/qanpcrt
Quality Assurance of Nasopharyngeal Cancer Radiation Therapy Targets (CTV's) using a novel web-based quality assurance application
https://github.com/bhklab/qanpcrt
cancer r radiation radiation-oncology radiation-therapy radiomics radiomics-analysis
Last synced: about 1 month ago
JSON representation
Quality Assurance of Nasopharyngeal Cancer Radiation Therapy Targets (CTV's) using a novel web-based quality assurance application
- Host: GitHub
- URL: https://github.com/bhklab/qanpcrt
- Owner: bhklab
- Created: 2022-01-25T22:22:19.000Z (almost 3 years ago)
- Default Branch: master
- Last Pushed: 2022-03-05T23:32:58.000Z (almost 3 years ago)
- Last Synced: 2024-04-11T15:26:07.703Z (9 months ago)
- Topics: cancer, r, radiation, radiation-oncology, radiation-therapy, radiomics, radiomics-analysis
- Language: R
- Homepage:
- Size: 35.2 KB
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- Citation: citation.bib
Awesome Lists containing this project
README
# Quality Assurance of Nasopharyngeal Cancer Radiation Therapy Targets (CTV's) using a novel web-based quality assurance application
## MedRxiv submission ["Development of web-based quality-assurance tool for radiotherapy target delineation for head and neck cancer: quality evaluation of nasopharyngeal carcinoma"](https://www.medrxiv.org/content/10.1101/2021.02.24.21252123v1)
## Clinical Acceptability Testing Web Application
### QUANNOTATE [(Web App)](https://www.quannotate.com) [(GitHub)](www.github.com/bhklab/quannotate)
## Code Ocean Capsule
This [Code Ocean compute capsule](codeocean.com/capsule/1953079/tree) will allow you to reproduce the results published by the author on your local machine1. Follow the instructions below, or consult [our knowledge base](https://help.codeocean.com/user-manual/sharing-and-finding-published-capsules/exporting-capsules-and-reproducing-results-on-your-local-machine) for more information. Don't hesitate to reach out via live chat or [email](mailto:[email protected]) if you have any questions.
1 You may need access to additional hardware and/or software licenses.
## Prerequisites
- [Docker Community Edition (CE)](https://www.docker.com/community-edition)
- MATLAB/MOSEK/Stata licenses where applicable
## Instructions
### The computational environment (Docker image)
This capsule is private and its environment cannot be downloaded at this time. You will need to rebuild the environment locally.
> If there's any software requiring a license that needs to be run during the build stage, you'll need to make your license available. See [our knowledge base](https://help.codeocean.com/user-manual/sharing-and-finding-published-capsules/exporting-capsules-and-reproducing-results-on-your-local-machine) for more information.
In your terminal, navigate to the folder where you've extracted the capsule and execute the following command:
```shell
cd environment && docker build . --tag 556c150d-cc06-4333-b25f-4ab024bb5ba9; cd ..
```
> This step will recreate the environment (i.e., the Docker image) locally, fetching and installing any required dependencies in the process. If any external resources have become unavailable for any reason, the environment will fail to build.
### Running the capsule to reproduce the results
In your terminal, navigate to the folder where you've extracted the capsule and execute the following command, adjusting parameters as needed:
```shell
docker run --rm \
--workdir /code \
--volume "$PWD/data":/data \
--volume "$PWD/code":/code \
--volume "$PWD/results":/results \
556c150d-cc06-4333-b25f-4ab024bb5ba9 ./run
```