A graphical user interface for RAId, a knowledge integrated proteomics analysis suite with accurate statistics

dc.contributor.authorJoyce, Brendanen
dc.contributor.authorLee, Dannyen
dc.contributor.authorRubio, Alexen
dc.contributor.authorOgurtsov, Alekseyen
dc.contributor.authorAlves, Gelioen
dc.contributor.authorYu, Yi-Kuoen
dc.date.accessioned2018-03-19T12:59:15Zen
dc.date.available2018-03-19T12:59:15Zen
dc.date.issued2018-03-15en
dc.date.updated2018-03-18T04:12:24Zen
dc.description.abstractObjective RAId is a software package that has been actively developed for the past 10 years for computationally and visually analyzing MS/MS data. Founded on rigorous statistical methods, RAId’s core program computes accurate E-values for peptides and proteins identified during database searches. Making this robust tool readily accessible for the proteomics community by developing a graphical user interface (GUI) is our main goal here. Results We have constructed a graphical user interface to facilitate the use of RAId on users’ local machines. Written in Java, RAId_GUI not only makes easy executions of RAId but also provides tools for data/spectra visualization, MS-product analysis, molecular isotopic distribution analysis, and graphing the retrieval versus the proportion of false discoveries. The results viewer displays and allows the users to download the analyses results. Both the knowledge-integrated organismal databases and the code package (containing source code, the graphical user interface, and a user manual) are available for download at https://www.ncbi.nlm.nih.gov/CBBresearch/Yu/downloads/raid.html.en
dc.description.versionPublished versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.citationBMC Research Notes. 2018 Mar 15;11(1):182en
dc.identifier.doihttps://doi.org/10.1186/s13104-018-3289-6en
dc.identifier.urihttp://hdl.handle.net/10919/82527en
dc.language.isoenen
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.holderThe Author(s)en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleA graphical user interface for RAId, a knowledge integrated proteomics analysis suite with accurate statisticsen
dc.title.serialBMC Research Notesen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

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