TDA As Image Analysis Tool. JSIAM annual meeting 2024. September 2024. (presentation by H.O.)
https://drive.google.com/file/d/1YY70zgbSmaaUSMflZO7lJ4USW0Da6ZLD/view?usp=sharing
GitHub Repository:
https://github.com/TopologicalBird/TAIAT_Project_Oda_Contributions
Databases used:
Binarize & PH
BBBC(Ljosa et al. Nature Methods 9(7):637 ) 002, 008, 038
https://doi.org/10.1093/bioinformatics/btu302
With Filter
BBBC(Ljosa et al. Nature Methods 9(7):637 ) 030, 038
https://doi.org/10.1093/bioinformatics/btu302
Higher Dimensions
https://github.com/BiAPoL/HIP_Introduction_to_Napari_and_image_processing_with_Python_2022/tree/main
It's not just processing
BBBC(Ljosa et al. Nature Methods 9(7):637 ) 038
Clinical Image Data
LIDC-IDRI (Armato III et al. (2015). Data From LIDC-IDRI [Data set]. The Cancer Imaging Archive.) https://doi.org/10.7937/K9/TCIA.2015.LO9QL9SX
The authors acknowledge the National Cancer Institute and the Foundation for the National Institutes of Health, and their critical role in the creation of the free publicly available LIDC/IDRI Database used in this study.
COVID-19-NY-SBU (Saltz et al.(2021). Stony Brook University COVID-19 Positive Cases [Data set]. The Cancer Imaging Archive.) https://doi.org/10.7937/TCIA.BBAG-2923
This part is a joint work with V.R. while H.O. visited ANU.
Software:
HomCloud (Obayashi et al., 2020) https://doi.org/10.7566/JPSJ.91.091013
diamorse (Robins et al., 2011) https://doi.org/10.1109/TPAMI.2011.95
XPHT (Turner et al., 2022) https://doi.org/10.48550/arXiv.2208.14583
Other references:
Distance to measure transform (Jiang, 2022) http://hdl.handle.net/1885/281469
PH figure detection (Oda, Oda et al., 2023 2024) https://doi.org/10.14495/jsiaml.15.33 https://doi.org/10.1038/s41598-023-37760-3 https://doi.org/10.14495/jsiaml.16.25