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      IsoFishR: An application for reproducible data reduction and analysis of strontium isotope ratios ( 87Sr/ 86Sr) obtained via laser-ablation MC-ICP-MS

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          Abstract

          The IsoFishR application is a data reduction and analysis tool for laser-ablation strontium isotope data, following common best practices and providing reliable and reproducible results. Strontium isotope ratios ( 87Sr/ 86Sr) are a powerful geochemical tracer commonly applied in a wide range of scientific fields and laser-ablation inductively coupled mass spectrometry is considered the method of choice to obtain spatially resolved 87Sr/ 86Sr isotope ratios from a variety of sample materials. However, data reduction and analyses methods are variable between different research groups and research communities limiting reproducibility between studies. IsoFishR provides a platform to standardize these methods and can be used for both spot and time-resolved line transects. Furthermore, it provides advanced data analysis tools and filters for outlier removal, noise reduction, and visualization of time resolved data. The application can be downloaded from GitHub ( https://github.com/MalteWillmes/IsoFishR) and the source code is available, encouraging future development and evolution of this software.

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          Most cited references35

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          Strontium Isotopes from the Earth to the Archaeological Skeleton: A Review

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            Strontium Isotope Stratigraphy: LOWESS Version 3: Best Fit to the Marine Sr‐Isotope Curve for 0–509 Ma and Accompanying Look‐up Table for Deriving Numerical Age

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              changepoint: AnRPackage for Changepoint Analysis

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                Author and article information

                Contributors
                Role: ConceptualizationRole: Data curationRole: MethodologyRole: Project administrationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: MethodologyRole: SoftwareRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: MethodologyRole: ValidationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: Data curationRole: MethodologyRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Data curationRole: Formal analysisRole: MethodologyRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: Project administrationRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                27 September 2018
                2018
                : 13
                : 9
                : e0204519
                Affiliations
                [1 ] Department of Wildlife, Fish and Conservation Biology, UC Davis, Davis, California, United States of America
                [2 ] Department of Land, Air, and Water Department, UC Davis, Davis, California, United States of America
                [3 ] Interdisciplinary Center for Plasma Mass Spectrometry, UC Davis, Davis, California, United States of America
                University of Otago, NEW ZEALAND
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                Author information
                http://orcid.org/0000-0001-8734-5324
                Article
                PONE-D-18-16513
                10.1371/journal.pone.0204519
                6160113
                30261018
                24277176-3983-49c3-8406-35f06d0b8c4c
                © 2018 Willmes et al

                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.

                History
                : 1 June 2018
                : 10 September 2018
                Page count
                Figures: 4, Tables: 4, Pages: 15
                Funding
                Funded by: California Department of Water Resources
                Award ID: #4600011196
                Award Recipient :
                Funded by: Delta Science Program
                Award ID: Grant No. (1167)
                Award Recipient :
                Funding disclosure: Parts of this study were funded by the Delta Science Program under Grant No. (1167) to Malte Willmes. The contents of this material do not necessarily reflect the views and policies of the Delta Stewardship Council, nor does mention of trade names or commercial products constitute endorsement or recommendation for use. Kathrine Ransom was funded from the California Department of Water Resources contract #4600011196 to James Hobbs. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Computer and Information Sciences
                Information Technology
                Data Reduction
                Biology and Life Sciences
                Anatomy
                Head
                Ears
                Inner Ear
                Otolith
                Medicine and Health Sciences
                Anatomy
                Head
                Ears
                Inner Ear
                Otolith
                Physical Sciences
                Physics
                Particle Physics
                Composite Particles
                Atoms
                Isotopes
                Research and Analysis Methods
                Chemical Characterization
                Isotope Analysis
                Engineering and Technology
                Equipment
                Optical Equipment
                Lasers
                Physical Sciences
                Chemistry
                Chemical Elements
                Strontium
                Earth Sciences
                Marine and Aquatic Sciences
                Bodies of Water
                Oceans
                Physical Sciences
                Mathematics
                Statistics (Mathematics)
                Statistical Data
                Custom metadata
                IsoFishR is available under the MIT license from GitHub ( https://github.com/MalteWillmes/IsoFishR) or by contacting Malte.willmes@ 123456googlemail.com .

                Uncategorized
                Uncategorized

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