Daniel Firnkorn, M. Gietzelt, C. Karmen, Matthias Ganzinger, P. Knaup-Gregori
{"title":"Generic Case Extractor: Extended Export of Clinical Facts from i2b2","authors":"Daniel Firnkorn, M. Gietzelt, C. Karmen, Matthias Ganzinger, P. Knaup-Gregori","doi":"10.3233/978-1-61499-512-8-937","DOIUrl":null,"url":null,"abstract":"Data import and export tools of the biomedical data warehouse system i2b2 (https://www.i2b2.org/) are restricted to its star schema and thus provide little flexibility. This is especially disadvantageous for external analysis with statistic software packages like SPSS or R. Further, data exports are limited to items previously selected within the query tool of i2b2. We present a tool for the case-oriented export of all clinical facts of a selected patient cohort into a CSV file for further analysis.","PeriodicalId":125683,"journal":{"name":"Medical Informatics Europe","volume":"72 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Medical Informatics Europe","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.3233/978-1-61499-512-8-937","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 0
Abstract
Data import and export tools of the biomedical data warehouse system i2b2 (https://www.i2b2.org/) are restricted to its star schema and thus provide little flexibility. This is especially disadvantageous for external analysis with statistic software packages like SPSS or R. Further, data exports are limited to items previously selected within the query tool of i2b2. We present a tool for the case-oriented export of all clinical facts of a selected patient cohort into a CSV file for further analysis.
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