Literature DB >> 25343788

Scientific data exchange: a schema for HDF5-based storage of raw and analyzed data.

Francesco De Carlo1, Doga Gürsoy1, Federica Marone2, Mark Rivers3, Dilworth Y Parkinson4, Faisal Khan1, Nicholas Schwarz1, David J Vine1, Stefan Vogt1, Sophie-Charlotte Gleber1, Suresh Narayanan1, Matt Newville3, Tony Lanzirotti3, Yue Sun5, Young Pyo Hong5, Chris Jacobsen1.   

Abstract

Data Exchange is a simple data model designed to interface, or `exchange', data among different instruments, and to enable sharing of data analysis tools. Data Exchange focuses on technique rather than instrument descriptions, and on provenance tracking of analysis steps and results. In this paper the successful application of the Data Exchange model to a variety of X-ray techniques, including tomography, fluorescence spectroscopy, fluorescence tomography and photon correlation spectroscopy, is described.

Keywords:  HDF5; data storage; provenance

Year:  2014        PMID： 25343788     DOI： 10.1107/S160057751401604X

Source DB:  PubMed          Journal:  J Synchrotron Radiat        ISSN： 0909-0495            Impact factor:   2.616


  16 in total

1.  A New Workflow for x-ray fluorescence tomography: MAPSToTomoPy.

Authors:  Young Pyo Hong; Si Chen; Chris Jacobsen
Journal:  Proc SPIE Int Soc Opt Eng       Date:  2015-09-18

2.  Maximum a posteriori estimation of crystallographic phases in X-ray diffraction tomography.

Authors:  Doĝa Gürsoy; Tekin Biçer; Jonathan D Almer; Raj Kettimuthu; Stuart R Stock; Francesco De Carlo
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2015-06-13       Impact factor: 4.226

3.  Joint reconstruction of x-ray fluorescence and transmission tomography.

Authors:  Zichao Wendy Di; Si Chen; Young Pyo Hong; Chris Jacobsen; Sven Leyffer; Stefan M Wild
Journal:  Opt Express       Date:  2017-06-12       Impact factor: 3.894

4.  Optimization of tomographic reconstruction workflows on geographically distributed resources.

Authors:  Tekin Bicer; Dogˇa Gürsoy; Rajkumar Kettimuthu; Francesco De Carlo; Ian T Foster
Journal:  J Synchrotron Radiat       Date:  2016-06-15       Impact factor: 2.616

5.  pyXPCSviewer: an open-source interactive tool for X-ray photon correlation spectroscopy visualization and analysis.

Authors:  Miaoqi Chu; Jeffrey Li; Qingteng Zhang; Zhang Jiang; Eric M Dufresne; Alec Sandy; Suresh Narayanan; Nicholas Schwarz
Journal:  J Synchrotron Radiat       Date:  2022-06-07       Impact factor: 2.557

Review 6.  The MAX IV imaging concept.

Authors:  Zdeněk Matěj; Rajmund Mokso; Krister Larsson; Vincent Hardion; Darren Spruce
Journal:  Adv Struct Chem Imaging       Date:  2016-12-01

7.  Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography.

Authors:  Eva L Dyer; William Gray Roncal; Judy A Prasad; Hugo L Fernandes; Doga Gürsoy; Vincent De Andrade; Kamel Fezzaa; Xianghui Xiao; Joshua T Vogelstein; Chris Jacobsen; Konrad P Körding; Narayanan Kasthuri
Journal:  eNeuro       Date:  2017-10-16

8.  GigaFRoST: the gigabit fast readout system for tomography.

Authors:  Rajmund Mokso; Christian M Schlepütz; Gerd Theidel; Heiner Billich; Elmar Schmid; Tine Celcer; Gordan Mikuljan; Leonardo Sala; Federica Marone; Nick Schlumpf; Marco Stampanoni
Journal:  J Synchrotron Radiat       Date:  2017-10-17       Impact factor: 2.616

9.  Towards on-the-fly data post-processing for real-time tomographic imaging at TOMCAT.

Authors:  Federica Marone; Alain Studer; Heiner Billich; Leonardo Sala; Marco Stampanoni
Journal:  Adv Struct Chem Imaging       Date:  2017-01-03

10.  Core Imaging Library - Part I: a versatile Python framework for tomographic imaging.

Authors:  J S Jørgensen; E Ametova; G Burca; G Fardell; E Papoutsellis; E Pasca; K Thielemans; M Turner; R Warr; W R B Lionheart; P J Withers
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2021-07-05       Impact factor: 4.226
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