TY - GEN
T1 - CellProfiler Analyst Web (CPAW) - Exploration, analysis, and classification of biological images on the web
AU - Baidak, Bella
AU - Hussain, Yahiya
AU - Kelminson, Emma
AU - Jones, Thouis R.
AU - Franke, Loraine
AU - Haehn, Daniel
N1 - Publisher Copyright:
© 2021 IEEE.
PY - 2021
Y1 - 2021
N2 - CellProfiler Analyst (CPA) has enabled the scientific research community to explore image-based data and classify complex biological phenotypes through an interactive user interface since its release in 2008. This paper describes CellProfiler Analyst Web (CPAW), a newly redesigned and web-based version of the software, allowing for greater accessibility, quicker setup, and facilitating a simple workflow for users. Installation and managing new versions has been challenging and time-consuming, historically. CPAW is an alternative that ensures installation and future updates are not a hassle to the user. CPAW ports the core iteration loop of CPA to a pure server-less browser environment using modern web-development technologies, allowing computationally heavy activities, like machine learning, to occur without freezing the user interface (UI). With a setup as simple as navigating to a website, CPAW presents a clean UI to the user to refine their classifier and explore pheno-typic data easily. We evaluated both the old and the new version of the software in an extensive domain expert study. We found that users could complete the essential classification tasks in CPAW and CPA 3.0 with the same efficiency. Additionally, users completed the tasks 20 percent faster using CPAW compared to CPA 3.0. The code of CellProfiler Analyst Web is open-source and available at https://mpsych.github.io/CellProfilerAnalystWeb/.
AB - CellProfiler Analyst (CPA) has enabled the scientific research community to explore image-based data and classify complex biological phenotypes through an interactive user interface since its release in 2008. This paper describes CellProfiler Analyst Web (CPAW), a newly redesigned and web-based version of the software, allowing for greater accessibility, quicker setup, and facilitating a simple workflow for users. Installation and managing new versions has been challenging and time-consuming, historically. CPAW is an alternative that ensures installation and future updates are not a hassle to the user. CPAW ports the core iteration loop of CPA to a pure server-less browser environment using modern web-development technologies, allowing computationally heavy activities, like machine learning, to occur without freezing the user interface (UI). With a setup as simple as navigating to a website, CPAW presents a clean UI to the user to refine their classifier and explore pheno-typic data easily. We evaluated both the old and the new version of the software in an extensive domain expert study. We found that users could complete the essential classification tasks in CPAW and CPA 3.0 with the same efficiency. Additionally, users completed the tasks 20 percent faster using CPAW compared to CPA 3.0. The code of CellProfiler Analyst Web is open-source and available at https://mpsych.github.io/CellProfilerAnalystWeb/.
KW - Biological Images
KW - Evaluation Methods
KW - Machine Learning Classification
KW - Visualization
UR - https://www.scopus.com/pages/publications/85123802006
UR - https://www.scopus.com/pages/publications/85123802006#tab=citedBy
U2 - 10.1109/VIS49827.2021.9623317
DO - 10.1109/VIS49827.2021.9623317
M3 - Conference contribution
AN - SCOPUS:85123802006
T3 - Proceedings - 2021 IEEE Visualization Conference - Short Papers, VIS 2021
SP - 131
EP - 135
BT - Proceedings - 2021 IEEE Visualization Conference - Short Papers, VIS 2021
PB - Institute of Electrical and Electronics Engineers Inc.
T2 - 2021 IEEE Visualization Conference, VIS 2021
Y2 - 24 October 2021 through 29 October 2021
ER -