Bioimage informatics: Investing in software usability is essential
In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics.
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| Vydáno v: | PLoS biology Ročník 21; číslo 7; s. e3002213 |
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| Hlavní autor: | |
| Médium: | Journal Article |
| Jazyk: | angličtina |
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Public Library of Science
31.07.2023
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| ISSN: | 1545-7885, 1544-9173, 1545-7885 |
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| Abstract | In 2018,
PLOS Biology
announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics. |
|---|---|
| AbstractList | In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics. In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics. In 2018, PLOS Biology announced CellProfiler 3.0, which has since become one of the most used pieces of image analysis software in biology. This Perspective looks at the past 20 years of bioimage informatics and highlights the importance of software usability for diffusing new methods within the field. In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics.In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics. In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of this software speaks to the importance of user experience to disseminate new methods of bioimage informatics. |
| Audience | Academic |
| Author | Paul-Gilloteaux, Perrine |
| AuthorAffiliation | 1 Nantes Université, CHU Nantes, CNRS, Inserm, BioCore, US16, SFR Bonamy, Nantes, France 2 Nantes Université, CNRS, Inserm, l’Institut du Thorax, Nantes, France |
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| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/37523379$$D View this record in MEDLINE/PubMed https://hal.science/hal-04175990$$DView record in HAL |
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| CitedBy_id | crossref_primary_10_1016_j_copbio_2023_103055 crossref_primary_10_1515_bmc_2025_0054 |
| Cites_doi | 10.1126/science.1082602 10.12688/f1000research.52569.1 10.1371/journal.pbio.3000340 10.1038/nmeth.2024 10.1371/journal.pbio.2005970 10.1186/gb-2006-7-10-r100 10.1038/nmeth.2084 10.1038/s41592-021-01262-9 10.1007/978-3-319-28549-8_9 10.1038/nmeth.2073 10.1093/bioinformatics/btn346 10.1038/s41592-018-0195-8 10.1038/nmeth.2088 |
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| Copyright | Copyright: © 2023 Perrine Paul-Gilloteaux. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. COPYRIGHT 2023 Public Library of Science 2023 Perrine Paul-Gilloteaux. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. Distributed under a Creative Commons Attribution 4.0 International License 2023 Perrine Paul-Gilloteaux 2023 Perrine Paul-Gilloteaux |
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| References | JR Swedlow (pbio.3002213.ref003) 2003; 300 P Paul-Gilloteaux (pbio.3002213.ref013) 2021; 10 M. Baker (pbio.3002213.ref002) 2012; 9 C McQuin (pbio.3002213.ref007) 2018; 16 KW Eliceiri (pbio.3002213.ref005) 2012; 9 AE Carpenter (pbio.3002213.ref006) 2006; 7 J Ellenberg (pbio.3002213.ref012) 2018; 15 M. Kozubek (pbio.3002213.ref009) 2016 CT Rueden (pbio.3002213.ref010) 2019; 17 E Gómez-de-Mariscal (pbio.3002213.ref011) 2021; 18 AE Carpenter (pbio.3002213.ref008) 2012; 9 H. Peng (pbio.3002213.ref001) 2008; 24 G. Myers (pbio.3002213.ref004) 2012; 9 |
| References_xml | – volume: 300 start-page: 100 year: 2003 ident: pbio.3002213.ref003 article-title: Informatics and Quantitative Analysis in Biological Imaging publication-title: Science doi: 10.1126/science.1082602 – volume: 10 start-page: 320 year: 2021 ident: pbio.3002213.ref013 article-title: Bioimage analysis workflows: community resources to navigate through a complex ecosystem. publication-title: F1000Res. doi: 10.12688/f1000research.52569.1 – volume: 17 start-page: e3000340 issue: 6 year: 2019 ident: pbio.3002213.ref010 article-title: Scientific Community Image Forum: A discussion forum for scientific image software publication-title: PLoS Biol doi: 10.1371/journal.pbio.3000340 – volume: 9 start-page: 659 year: 2012 ident: pbio.3002213.ref004 article-title: Why bioimage informatics matters. publication-title: Nat Methods doi: 10.1038/nmeth.2024 – volume: 16 start-page: e2005970 issue: 7 year: 2018 ident: pbio.3002213.ref007 article-title: CellProfiler 3.0: Next-generation image processing for biology publication-title: PLoS Biol doi: 10.1371/journal.pbio.2005970 – volume: 7 start-page: R100 year: 2006 ident: pbio.3002213.ref006 article-title: CellProfiler: image analysis software for identifying and quantifying cell phenotypes publication-title: Genome Biol doi: 10.1186/gb-2006-7-10-r100 – volume: 9 start-page: 697 year: 2012 ident: pbio.3002213.ref005 article-title: Biological imaging software tools. publication-title: Nat Methods doi: 10.1038/nmeth.2084 – volume: 18 start-page: 1192 year: 2021 ident: pbio.3002213.ref011 article-title: DeepImageJ: A user-friendly environment to run deep learning models in ImageJ publication-title: Nat Methods doi: 10.1038/s41592-021-01262-9 – start-page: 231 volume-title: Focus on Bio-Image Informatics year: 2016 ident: pbio.3002213.ref009 article-title: Challenges and Benchmarks in Bioimage Analysis doi: 10.1007/978-3-319-28549-8_9 – volume: 9 start-page: 666 year: 2012 ident: pbio.3002213.ref008 article-title: A call for bioimaging software usability. publication-title: Nat Methods. doi: 10.1038/nmeth.2073 – volume: 24 start-page: 1827 year: 2008 ident: pbio.3002213.ref001 article-title: Bioimage informatics: a new area of engineering biology publication-title: Bioinformatics doi: 10.1093/bioinformatics/btn346 – volume: 15 start-page: 849 year: 2018 ident: pbio.3002213.ref012 article-title: A call for public archives for biological image data. publication-title: Nat Methods. doi: 10.1038/s41592-018-0195-8 – volume: 9 start-page: 629 year: 2012 ident: pbio.3002213.ref002 article-title: Murphy. publication-title: Nat Methods. doi: 10.1038/nmeth.2088 |
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PLOS Biology
announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of... In 2018, PLOS Biology announced CellProfiler 3.0, which has become one of the most used pieces of image analysis software in biology. The rapid adoption of... |
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| SubjectTerms | Algorithms Batch processing Bioengineering Biological research Biology Cellular Biology Cheminformatics Cloud computing Computational Biology - methods Computer and Information Sciences Computer Science Deep learning Engineering and Technology Forecasts and trends Image analysis Image Processing Image Processing, Computer-Assisted - methods Imaging Informatics Life Sciences Methods Microscopy Open source software Research and Analysis Methods Science Policy Software Usability User experience |
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| Title | Bioimage informatics: Investing in software usability is essential |
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