许可协议

ACADEMIC NON-COMMERCIAL SOFTWARE LICENSE – Terms and Conditions of Use

(November, 3rd, 2021)

(Patent Pending: [P. R. China patent 202211067952.6](https://www.patentguru.com/cn/search?q=202211067952.6))

**PATENT PROTECTION NOTICE:** The following intellectual property embodied in this Software is protected under the above-referenced patent and any related patents, and is NOT licensed under this Agreement (requires a separate commercial license):

- **Software design and architecture**: the overall software architecture design, including but not limited to the command-line interface (CLI) tool, FastAPI-based prediction service, model management system, configuration generation system, unified data split mechanism, data preprocessing pipeline, training orchestration framework, and prediction utilities;
- **Modeling methods**: all machine learning and deep learning pipelines for gene-level extrachromosomal DNA (ecDNA) cargo gene prediction and sample-level focal amplification (fCNA) classification, including but not limited to feature engineering strategies, data augmentation techniques, and all model architectures including XGBoost variants (xgb_new, xgb_paper, xgb_tuned), Transformer, TabPFN ensemble, Deep Residual Networks, Optimized Residual Networks, Deep Gated Interaction Transformer (DGIT), and MLP baseline models;
- **Modeling features and feature construction approaches**: derived genomic features, copy number variation metrics (including but not limited to segment values, minor copy number, purity, ploidy, AScore, pLOH, CNA burden, intersect ratio), copy number signatures (CN1-CN19), cancer type encoding, and all computational extraction, transformation, and imputation methods thereof;
- **Model construction techniques**: all model architectures, training methodologies, hyperparameter configurations, ensemble strategies, custom loss functions, optimization protocols, learning rate schedules, early stopping criteria, and model selection procedures;
- **Model files**: all pre-trained model objects, serialized model binaries (.pkl, .pth), model parameters, model weights, training summaries, configuration files, and any derivative works thereof.

Any use, reproduction, modification, or distribution of the above patented subject matter outside the scope of personal academic non-commercial research requires a separate written commercial license from the patent holder(s).

1. Copyright notice

This software and associated documentation files (the "Software") is protected by copyright.

Copyright ©2021 Shixiang Wang, Qi Zhao and Ruihua Xu @ SYSUCC

2. Copyright license

2.1 Grant of personal license

Subject to the terms and conditions of this license, the Licensor as indicated in the copyright notice above hereby grants to you a non-exclusive, royalty-free, copyright license to use the Software as a personal copy for your personal use for academic non-commercial research purposes only.

2.2 Prohibited use

You are not permitted to use the Software or any modification, manipulation or derivative of the Software for any commercial use, including but not limited to transfer, sale or licence to a commercial third party or use on behalf of a commercial third party (including but not limited to use as part of a service supplied to any third party for financial reward). For the avoidance of doubt, you are not permitted to conduct research or other activities which are sponsored or otherwise supported (financially or otherwise) by any commercial organisation. You are not permitted to forward, or provide, a copy of the Software to any other person or party.

3. Disclaimer

THIS SOFTWARE IS PROVIDED TO YOU "AS IS", AT YOUR OWN RISK, WITHOUT WARRANTY OR REPRESENTATION OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES AND REPRESENTATIONS OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS, LICENSOR OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH, THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

4.  Governing Law and Jurisdiction.

By taking a license, you agree that any dispute arising under the terms of this license shall be governed by the laws of the People's Republic of China under the exclusive jurisdiction of the China's courts.