在应用HyperView™ mIHC/mIF技术体系进行样本染色和分析研究的过程中,会使用到复杂的工具链,需要你在进行文章发表时进行引用,主要包含以下内容,如有不清楚的地方,请咨询项目经理:
【QuPath】-主要用于病理图像分析,例如组织分型、细胞分割、靶标共表达等模块
Bankhead, P. et al. QuPath: Open source software for digital pathology image analysis. Scientific Reports (2017). doi.org/10.1038/s41598-017-17204-5
【StarDist】-主要用于基于机器学习的细胞分割
Uwe Schmidt, Martin Weigert, Coleman Broaddus, and Gene Myers. Cell Detection with Star-convex Polygons. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), Granada, Spain, September 2018. doi.org/10.48550/arXiv.1806.03535
【Fiji】-科学图像分析软件,可用于图像预处理,多模态图像配准等场景
Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., … Cardona, A. (2012). Fiji: an open-source platform for biological-image analysis. Nature Methods, 9(7), 676–682. doi:10.1038/nmeth.2019
【Bio-Formats】-生物医学领域图像格式处理库,可兼容多种常见图像格式及各大显微镜厂商的专有格式,例如:tif、nd2、vsi、btf等
Linkert, M., Rueden, C. T., Allan, C., Burel, J.-M., Moore, W., Patterson, A., … Swedlow, J. R. (2010). Metadata matters: access to image data in the real world. Journal of Cell Biology, 189(5), 777–782. doi:10.1083/jcb.201004104
【Feature Extraction Registration】-识别两个图像中的一组对应兴趣点,实施高精度的多模态多层图像配准
Lowe, D. G. (2004). Distinctive Image Features from Scale-Invariant Keypoints. International Journal of Computer Vision, 60(2), 91–110. doi:10.1023/b:visi.0000029664.99615.94
Brown, M., Szeliski, R., & Winder, S. (n.d.). Multi-Image Matching Using Multi-Scale Oriented Patches. In 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR’05). IEEE. doi:10.1109/cvpr.2005.235
Fischler, M. A., & Bolles, R. C. (1981). Random sample consensus. Communications of the ACM, 24(6), 381–395. doi:10.1145/358669.358692