一个开源软件生态系统,用于超快电子散射数据的交互式探索

IF 3.56 Q1 Medicine
Laurent P. René de Cotret, Martin R. Otto, Mark J. Stern, Bradley J. Siwick
{"title":"一个开源软件生态系统,用于超快电子散射数据的交互式探索","authors":"Laurent P. René de Cotret,&nbsp;Martin R. Otto,&nbsp;Mark J. Stern,&nbsp;Bradley J. Siwick","doi":"10.1186/s40679-018-0060-y","DOIUrl":null,"url":null,"abstract":"<p>This paper details a software ecosystem comprising three free and open-source Python packages for processing raw ultrafast electron scattering (UES) data and interactively exploring the processed data. The first package, <i>iris</i>, is graphical user-interface program and library for interactive exploration of UES data. Under the hood, <i>iris</i> makes use of <i>npstreams</i>, an extensions of <i>numpy</i> to streaming array-processing, for high-throughput parallel data reduction. Finally, we present <i>scikit-ued</i>, a library of reusable routines and data structures for analysis of UES data, including specialized image processing algorithms, simulation routines, and crystal structure manipulation operations. In this paper, some of the features or all three packages are highlighted, such as parallel data reduction, image registration, interactive exploration. The packages are fully tested and documented and are released under permissive licenses.</p>","PeriodicalId":460,"journal":{"name":"Advanced Structural and Chemical Imaging","volume":"4 1","pages":""},"PeriodicalIF":3.5600,"publicationDate":"2018-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40679-018-0060-y","citationCount":"12","resultStr":"{\"title\":\"An open-source software ecosystem for the interactive exploration of ultrafast electron scattering data\",\"authors\":\"Laurent P. René de Cotret,&nbsp;Martin R. Otto,&nbsp;Mark J. Stern,&nbsp;Bradley J. Siwick\",\"doi\":\"10.1186/s40679-018-0060-y\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>This paper details a software ecosystem comprising three free and open-source Python packages for processing raw ultrafast electron scattering (UES) data and interactively exploring the processed data. The first package, <i>iris</i>, is graphical user-interface program and library for interactive exploration of UES data. Under the hood, <i>iris</i> makes use of <i>npstreams</i>, an extensions of <i>numpy</i> to streaming array-processing, for high-throughput parallel data reduction. Finally, we present <i>scikit-ued</i>, a library of reusable routines and data structures for analysis of UES data, including specialized image processing algorithms, simulation routines, and crystal structure manipulation operations. In this paper, some of the features or all three packages are highlighted, such as parallel data reduction, image registration, interactive exploration. The packages are fully tested and documented and are released under permissive licenses.</p>\",\"PeriodicalId\":460,\"journal\":{\"name\":\"Advanced Structural and Chemical Imaging\",\"volume\":\"4 1\",\"pages\":\"\"},\"PeriodicalIF\":3.5600,\"publicationDate\":\"2018-09-22\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://sci-hub-pdf.com/10.1186/s40679-018-0060-y\",\"citationCount\":\"12\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Advanced Structural and Chemical Imaging\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://link.springer.com/article/10.1186/s40679-018-0060-y\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"Medicine\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Advanced Structural and Chemical Imaging","FirstCategoryId":"1085","ListUrlMain":"https://link.springer.com/article/10.1186/s40679-018-0060-y","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"Medicine","Score":null,"Total":0}
引用次数: 12

摘要

本文详细介绍了一个软件生态系统,包括三个免费和开源的Python包,用于处理原始的超快电子散射(UES)数据并交互式地探索处理后的数据。第一个包iris是用于UES数据交互探索的图形用户界面程序和库。在底层,iris使用npstreams,这是numpy对流数组处理的扩展,用于高吞吐量并行数据缩减。最后,我们介绍了scikit-ued,一个用于分析UES数据的可重用例程和数据结构库,包括专门的图像处理算法、仿真例程和晶体结构操作操作。本文重点介绍了并行数据约简、图像配准、交互式探索等三种方法的一些特点。这些软件包经过了充分的测试和记录,并在宽松的许可证下发布。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

An open-source software ecosystem for the interactive exploration of ultrafast electron scattering data

An open-source software ecosystem for the interactive exploration of ultrafast electron scattering data

This paper details a software ecosystem comprising three free and open-source Python packages for processing raw ultrafast electron scattering (UES) data and interactively exploring the processed data. The first package, iris, is graphical user-interface program and library for interactive exploration of UES data. Under the hood, iris makes use of npstreams, an extensions of numpy to streaming array-processing, for high-throughput parallel data reduction. Finally, we present scikit-ued, a library of reusable routines and data structures for analysis of UES data, including specialized image processing algorithms, simulation routines, and crystal structure manipulation operations. In this paper, some of the features or all three packages are highlighted, such as parallel data reduction, image registration, interactive exploration. The packages are fully tested and documented and are released under permissive licenses.

求助全文
通过发布文献求助,成功后即可免费获取论文全文。 去求助
来源期刊
Advanced Structural and Chemical Imaging
Advanced Structural and Chemical Imaging Medicine-Radiology, Nuclear Medicine and Imaging
自引率
0.00%
发文量
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信