%%% ====================================================================
%%%  BibTeX-file{
%%%     author          = "Gerry Murray",
%%%     version         = "1.2",
%%%     date            = "2 April 2012",
%%%     filename        = "acmsmall-sample-bibfile.bib",
%%%     address         = "ACM, NY",
%%%     email           = "murray at hq.acm.org",
%%%     codetable       = "ISO/ASCII",
%%%     keywords        = "ACM Reference Format, bibliography, citation, references",
%%%     supported       = "yes",
%%%     docstring       = "This BibTeX database file contains 'bibdata' entries
%%%                        that 'match' the examples provided in the Specifications Document
%%%                        AND, also, 'legacy'-type bibs. It should assist authors in 
%%%                        choosing the 'correct' at-bibtype and necessary bib-fields
%%%                        so as to obtain the appropriate ACM Reference Format output. 
%%%			   It also contains many 'Standard Abbreviations'. "
%%%  }
%%% ====================================================================

% Journals

% First the Full Name is given, then the abbreviation used in the AMS Math
% Reviews, with an indication if it could not be found there.
% Note the 2nd overwrites the 1st, so swap them if you want the full name.

 %{AMS}
 @String{AMSTrans = "American Mathematical Society Translations" }
 @String{AMSTrans = "Amer. Math. Soc. Transl." }
 @String{BullAMS = "Bulletin of the American Mathematical Society" }
 @String{BullAMS = "Bull. Amer. Math. Soc." }
 @String{ProcAMS = "Proceedings of the American Mathematical Society" }
 @String{ProcAMS = "Proc. Amer. Math. Soc." }
 @String{TransAMS = "Transactions of the American Mathematical Society" }
 @String{TransAMS = "Trans. Amer. Math. Soc." }

 %ACM
 @String{CACM = "Communications of the {ACM}" }
 @String{CACM = "Commun. {ACM}" }
 @String{CompServ = "Comput. Surveys" }
 @String{JACM = "J. ACM" }
 @String{ACMMathSoft = "{ACM} Transactions on Mathematical Software" }
 @String{ACMMathSoft = "{ACM} Trans. Math. Software" }
 @String{SIGNUM = "{ACM} {SIGNUM} Newsletter" }
 @String{SIGNUM = "{ACM} {SIGNUM} Newslett." }

 @String{AmerSocio = "American Journal of Sociology" }
 @String{AmerStatAssoc = "Journal of the American Statistical Association" }
 @String{AmerStatAssoc = "J. Amer. Statist. Assoc." }
 @String{ApplMathComp = "Applied Mathematics and Computation" }
 @String{ApplMathComp = "Appl. Math. Comput." }
 @String{AmerMathMonthly = "American Mathematical Monthly" }
 @String{AmerMathMonthly = "Amer. Math. Monthly" }
 @String{BIT = "{BIT}" }
 @String{BritStatPsych = "British Journal of Mathematical and Statistical
          Psychology" }
 @String{BritStatPsych = "Brit. J. Math. Statist. Psych." }
 @String{CanMathBull = "Canadian Mathematical Bulletin" }
 @String{CanMathBull = "Canad. Math. Bull." }
 @String{CompApplMath = "Journal of Computational and Applied Mathematics" }
 @String{CompApplMath = "J. Comput. Appl. Math." }
 @String{CompPhys = "Journal of Computational Physics" }
 @String{CompPhys = "J. Comput. Phys." }
 @String{CompStruct = "Computers and Structures" }
 @String{CompStruct = "Comput. \& Structures" }
 @String{CompJour = "The Computer Journal" }
 @String{CompJour = "Comput. J." }
 @String{CompSysSci = "Journal of Computer and System Sciences" }
 @String{CompSysSci = "J. Comput. System Sci." }
 @String{Computing = "Computing" }
 @String{ContempMath = "Contemporary Mathematics" }
 @String{ContempMath = "Contemp. Math." }
 @String{Crelle = "Crelle's Journal" }
 @String{GiornaleMath = "Giornale di Mathematiche" }
 @String{GiornaleMath = "Giorn. Mat." } % didn't find in AMS MR., ibid.

 %IEEE
 @String{Computer = "{IEEE} Computer" }
 @String{IEEETransComp = "{IEEE} Transactions on Computers" }
 @String{IEEETransComp = "{IEEE} Trans. Comput." }
 @String{IEEETransAC = "{IEEE} Transactions on Automatic Control" }
 @String{IEEETransAC = "{IEEE} Trans. Automat. Control" }
 @String{IEEESpec = "{IEEE} Spectrum" } % didn't find in AMS MR
 @String{ProcIEEE = "Proceedings of the {IEEE}" }
 @String{ProcIEEE = "Proc. {IEEE}" } % didn't find in AMS MR
 @String{IEEETransAeroElec = "{IEEE} Transactions on Aerospace and Electronic
     Systems" }
 @String{IEEETransAeroElec = "{IEEE} Trans. Aerospace Electron. Systems" }

 @String{IMANumerAna = "{IMA} Journal of Numerical Analysis" }
 @String{IMANumerAna = "{IMA} J. Numer. Anal." }
 @String{InfProcLet = "Information Processing Letters" }
 @String{InfProcLet = "Inform. Process. Lett." }
 @String{InstMathApp = "Journal of the Institute of Mathematics and
     its Applications" }
 @String{InstMathApp = "J. Inst. Math. Appl." }
 @String{IntControl = "International Journal of Control" }
 @String{IntControl = "Internat. J. Control" }
 @String{IntNumerEng = "International Journal for Numerical Methods in
     Engineering" }
 @String{IntNumerEng = "Internat. J. Numer. Methods Engrg." }
 @String{IntSuper = "International Journal of Supercomputing Applications" }
 @String{IntSuper = "Internat. J. Supercomputing Applic." } % didn't find
%% in AMS MR
 @String{Kibernetika = "Kibernetika" }
 @String{JResNatBurStand = "Journal of Research of the National Bureau
     of Standards" }
 @String{JResNatBurStand = "J. Res. Nat. Bur. Standards" }
 @String{LinAlgApp = "Linear Algebra and its Applications" }
 @String{LinAlgApp = "Linear Algebra Appl." }
 @String{MathAnaAppl = "Journal of Mathematical Analysis and Applications" }
 @String{MathAnaAppl = "J. Math. Anal. Appl." }
 @String{MathAnnalen = "Mathematische Annalen" }
 @String{MathAnnalen = "Math. Ann." }
 @String{MathPhys = "Journal of Mathematical Physics" }
 @String{MathPhys = "J. Math. Phys." }
 @String{MathComp = "Mathematics of Computation" }
 @String{MathComp = "Math. Comp." }
 @String{MathScand = "Mathematica Scandinavica" }
 @String{MathScand = "Math. Scand." }
 @String{TablesAidsComp = "Mathematical Tables and Other Aids to Computation" }
 @String{TablesAidsComp = "Math. Tables Aids Comput." }
 @String{NumerMath = "Numerische Mathematik" }
 @String{NumerMath = "Numer. Math." }
 @String{PacificMath = "Pacific Journal of Mathematics" }
 @String{PacificMath = "Pacific J. Math." }
 @String{ParDistComp = "Journal of Parallel and Distributed Computing" }
 @String{ParDistComp = "J. Parallel and Distrib. Comput." } % didn't find
%% in AMS MR
 @String{ParComputing = "Parallel Computing" }
 @String{ParComputing = "Parallel Comput." }
 @String{PhilMag = "Philosophical Magazine" }
 @String{PhilMag = "Philos. Mag." }
 @String{ProcNAS = "Proceedings of the National Academy of Sciences
                    of the USA" }
 @String{ProcNAS = "Proc. Nat. Acad. Sci. U. S. A." }
 @String{Psychometrika = "Psychometrika" }
 @String{QuartMath = "Quarterly Journal of Mathematics, Oxford, Series (2)" }
 @String{QuartMath = "Quart. J. Math. Oxford Ser. (2)" }
 @String{QuartApplMath = "Quarterly of Applied Mathematics" }
 @String{QuartApplMath = "Quart. Appl. Math." }
 @String{RevueInstStat = "Review of the International Statisical Institute" }
 @String{RevueInstStat = "Rev. Inst. Internat. Statist." }

 %SIAM
 @String{JSIAM = "Journal of the Society for Industrial and Applied
     Mathematics" }
 @String{JSIAM = "J. Soc. Indust. Appl. Math." }
 @String{JSIAMB = "Journal of the Society for Industrial and Applied
     Mathematics, Series B, Numerical Analysis" }
 @String{JSIAMB = "J. Soc. Indust. Appl. Math. Ser. B Numer. Anal." }
 @String{SIAMAlgMeth = "{SIAM} Journal on Algebraic and Discrete Methods" }
 @String{SIAMAlgMeth = "{SIAM} J. Algebraic Discrete Methods" }
 @String{SIAMAppMath = "{SIAM} Journal on Applied Mathematics" }
 @String{SIAMAppMath = "{SIAM} J. Appl. Math." }
 @String{SIAMComp = "{SIAM} Journal on Computing" }
 @String{SIAMComp = "{SIAM} J. Comput." }
 @String{SIAMMatrix = "{SIAM} Journal on Matrix Analysis and Applications" }
 @String{SIAMMatrix = "{SIAM} J. Matrix Anal. Appl." }
 @String{SIAMNumAnal = "{SIAM} Journal on Numerical Analysis" }
 @String{SIAMNumAnal = "{SIAM} J. Numer. Anal." }
 @String{SIAMReview = "{SIAM} Review" }
 @String{SIAMReview = "{SIAM} Rev." }
 @String{SIAMSciStat = "{SIAM} Journal on Scientific and Statistical
     Computing" }
 @String{SIAMSciStat = "{SIAM} J. Sci. Statist. Comput." }

 @String{SoftPracExp = "Software Practice and Experience" }
 @String{SoftPracExp = "Software Prac. Experience" } % didn't find in AMS MR
 @String{StatScience = "Statistical Science" }
 @String{StatScience = "Statist. Sci." }
 @String{Techno = "Technometrics" }
 @String{USSRCompMathPhys = "{USSR} Computational Mathematics and Mathematical
     Physics" }
 @String{USSRCompMathPhys = "{U. S. S. R.} Comput. Math. and Math. Phys." }
 @String{VLSICompSys = "Journal of {VLSI} and Computer Systems" }
 @String{VLSICompSys = "J. {VLSI} Comput. Syst." }
 @String{ZAngewMathMech = "Zeitschrift fur Angewandte Mathematik und
     Mechanik" }
 @String{ZAngewMathMech = "Z. Angew. Math. Mech." }
 @String{ZAngewMathPhys = "Zeitschrift fur Angewandte Mathematik und Physik" }
 @String{ZAngewMathPhys = "Z. Angew. Math. Phys." }

% Publishers % ================================================= |

 @String{Academic = "Academic Press" }
 @String{ACMPress = "{ACM} Press" }
 @String{AdamHilger = "Adam Hilger" }
 @String{AddisonWesley = "Addison-Wesley" }
 @String{AllynBacon = "Allyn and Bacon" }
 @String{AMS = "American Mathematical Society" }
 @String{Birkhauser = "Birkha{\"u}ser" }
 @String{CambridgePress = "Cambridge University Press" }
 @String{Chelsea = "Chelsea" }
 @String{ClaredonPress = "Claredon Press" }
 @String{DoverPub = "Dover Publications" }
 @String{Eyolles = "Eyolles" }
 @String{HoltRinehartWinston = "Holt, Rinehart and Winston" }
 @String{Interscience = "Interscience" }
 @String{JohnsHopkinsPress = "The Johns Hopkins University Press" }
 @String{JohnWileySons = "John Wiley and Sons" }
 @String{Macmillan = "Macmillan" }
 @String{MathWorks = "The Math Works Inc." }
 @String{McGrawHill = "McGraw-Hill" }
 @String{NatBurStd = "National Bureau of Standards" }
 @String{NorthHolland = "North-Holland" }
 @String{OxfordPress = "Oxford University Press" }  %address Oxford or London?
 @String{PergamonPress = "Pergamon Press" }
 @String{PlenumPress = "Plenum Press" }
 @String{PrenticeHall = "Prentice-Hall" }
 @String{SIAMPub = "{SIAM} Publications" }
 @String{Springer = "Springer-Verlag" }
 @String{TexasPress = "University of Texas Press" }
 @String{VanNostrand = "Van Nostrand" }
 @String{WHFreeman = "W. H. Freeman and Co." }

%Entries

@electronic{aschwanden,
   author = {Christie Aschwanden},
   title = {You Can’t Trust What You Read About Nutrition},
   howpublished =
      {http://fivethirtyeight.com/features/you-cant-trust-what-you-read-about-nutrition/},
   year = 2016
}

@article{baker,
    author = {Baker, Monya},
    citeulike-article-id = {14042568},
    citeulike-linkout-0 = {http://dx.doi.org/10.1038/533452a},
    day = {25},
    doi = {10.1038/533452a},
    issn = {0028-0836},
    journal = {Nature},
    keywords = {meta\_research, reproducibility},
    month = may,
    number = {7604},
    pages = {452--454},
    posted-at = {2016-05-30 03:37:17},
    priority = {0},
    title = {{1,500 scientists lift the lid on reproducibility}},
    url = {http://dx.doi.org/10.1038/533452a},
    volume = {533},
    year = {2016}
}

@article{bertram,
  title={Trends in use of scientific workflows: Insights from a public
     repository and recommendations for best practice},
  author={Littauer, Richard and Ram, Karthik and Lud{\"a}scher, Bertram
     and Michener, William and Koskela, Rebecca},
  journal={International Journal of Digital Curation},
  volume={7},
  number={2},
  pages={92--100},
  year={2012}
}

@electronic{crantask,
   author = {Max Kuhn},
   title = {CRAN Task View: Reproducible Research},
   howpublished =
      {https://cran.r-project.org/web/views/ReproducibleResearch.html},
   year = 2015
}

@InProceedings{faceit,
  title =       {Applications of the {FACE}-{IT} Data Science Portal
                 and Workflow Engine for Operational Food Quality
                 Prediction and Assessment: Mussel Farm Monitoring in
                 the Bay of Napoli, Italy},
  author =      {Raffaele Montella and Alison Brizius and Diana Di
                 Luccio and Cheryl H. Porter and Joshua Elliott and Ravi
                 K. Madduri and David Kelly and Angelo Riccio and Ian T.
                 Foster},
  year =        {2016},
  bibsource =   {DBLP,
                 http://dblp.uni-trier.de/db/conf/sc/works2016.html#MontellaBLPEMKR16},
  booktitle =   {WORKS@SC},
  editor =      {Sandra Gesing and Rizos Sakellariou},
  pages =       {64--68},
  series =      {CEUR Workshop Proceedings},
  URL =         {http://ceur-ws.org/Vol-1800}
}

@book{gandrud,
  title={Reproducible Research with R and R Studio, Second Edition},
  author={Gandrud, C.},
  isbn={9781498715386},
  series={Chapman \& Hall/CRC The R Series},
  url={https://books.google.com/books?id=Ce35CQAAQBAJ},
  year={2016},
  publisher={CRC Press}
}

@electronic{pollin, 
   author = {Robert Pollin},
   title = {Response to Charges Concerning the Herndon/Ash/Pollin
   Replication of Reinhart and Rogoff's ``Growth in a Time of Debt''},
   howpublished =
   {https://pdfs.semanticscholar.org/1502/36d0458282926ba3febc46f0a0f3a5e0e524.pdf},
   year = {2014}
}

@article{karthik,
  title={Git can facilitate greater reproducibility and increased
transparency in science},
  author={Ram, Karthik},
  journal={Source code for biology and medicine},
  volume={8},
  number={1},
  pages={7},
  year={2013},
  publisher={BioMed Central}
}

@book{matloffreg,
  title={Statistical Regression and Classification: 
     From Linear Models to Machine Learning},
  author={Matloff, N.},
  isbn={9781138066465},
  lccn={2017011270},
  series={Chapman \& Hall/CRC the R},
  year={2017},
  publisher={Taylor \& Francis Group}
}

@article{ml,
 author = {Harper, F. Maxwell and Konstan, Joseph A.},
 title = {The MovieLens Datasets: History and Context},
 journal = {ACM Trans. Interact. Intell. Syst.},
 issue_date = {January 2016},
 volume = {5},
 number = {4},
 month = dec,
 year = {2015},
 issn = {2160-6455},
 pages = {19:1--19:19},
 articleno = {19},
 numpages = {19},
 url = {http://doi.acm.org/10.1145/2827872},
 doi = {10.1145/2827872},
 acmid = {2827872},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {Datasets, MovieLens, ratings, recommendations},
} 

@electronic{pima,
   author = {Vincent Sigillito},
   title = {Pima Indians Diabetes Data Set},
   howpublished =
      {https://archive.ics.uci.edu/ml/datasets/pima+indians+diabetes},
   year = 1990
}

@article{ronw,
   author = {Ronald L. Wasserstein and Nicole A. Lazar},
   title = {The ASA's Statement on p-Values: Context, Process, and Purpose},
   journal = {The American Statistician},
   volume = {70},
   number = {2},
   pages = {129-133},
   year = {2016},
   doi = {10.1080/00031305.2016.1154108},
   
   URL = {http://dx.doi.org/10.1080/00031305.2016.1154108},
   eprint =  {http://dx.doi.org/10.1080/00031305.2016.1154108}

}

@book{Gandrud-2013,
 address = {Boca Raton, FL, USA},
 author = {Gandrud, Christopher},
edition = {2nd},
 isbn = {9781466572843},
 publisher = {Taylor {\&} Francis Ltd},
 title = {Reproducible Research with R and RStudio},
 year = {2013}
}

@article{Ioannidis-2005-696-701,
 archiveprefix = {arXiv},
arxivid = {gr-qc/0208024},
author = {Ioannidis, John P A},
doi = {10.1371/journal.pmed.0020124},
 eprint = {0208024},
 isbn = {3540239081},
 issn = {15491277},
 journal = {PLoS Medicine},
month = {aug},
number = {8},
 pages = {0696--0701},
 pmid = {16060722},
primaryclass = {gr-qc},
title = {Why most published research findings are false},
 volume = {2},
 year = {2005}
}

@inproceedings{Baggerly-2011-1,
 author = {Baggerly, Keith A},
 title = {The Importance of Reproducible Research in Genomics},
 year = {2011}
}

@article{Reich-Nature-2011,
 author = {Reich, Eugenie Samuel},
 doi = {10.1038/469139a},
 issn = {0028-0836},
 journal = {Nature},
 month = {jan},
 number = {January},
 pages = {139--140},
 title = {Cancer trials errors revealed},
 volume = {469},
 year = {2011}
}

@article{Thompson-2016-2,
 author = {Thompson, Paul A},
 journal = {TBD},
 pages = {Under Preparation},
 title = {Reproducible computational research: The state of the art}
}

@article{Peng-2011-1226-1227,
 author = {Peng, Roger D},
 doi = {10.1126/science.1213847},
 issn = {1095-9203},
 journal = {Science (New York, N.Y.)},
 month = {dec},
 number = {6060},
 pages = {1226--1227},
 pmid = {22144613},
 title = {Reproducible research in computational science.},
 volume = {334},
 year = {2011}
}

@article{Donoho-2009-8-18,
 author = {Donoho, David L. and Maleki, Arian and Shahram, Morteza and
    Rahman, Inam Ur and Stodden, Victoria},
 doi = {10.1109/MCSE.2009.15},
 isbn = {1521-9615},
 issn = {15219615},
 journal = {Computing in Science and Engineering},
 number = {1},
 pages = {8--18},
 pmid = {4720218},
 title = {Reproducible research in computational harmonic analysis},
 volume = {11},
 year = {2009}
}

@article{hayden,
    author = {EC Hayden},
    doi = {10.1038/nature.2012.10298},
    journal = {Nature},
    title = {Lapses in oversight compromise omics results: US
       board calls for tighter control of test-based data},
    year = {2012}
}

@Manual{rstudio, title = {RStudio: Integrated Development Environment for R}, author = {{RStudio Team}}, organization = {RStudio, Inc.}, address = {Boston, MA}, year = {2015}, url = {http://www.rstudio.com/}, }

@article{berk2013,
   author = "Berk, Richard and Brown, Lawrence and Buja, Andreas and Zhang, Kai and Zhao, Linda",
   doi = "10.1214/12-AOS1077",
   fjournal = "The Annals of Statistics",
   journal = "Ann. Statist.",
   month = "04",
   number = "2",
   pages = "802--837",
   publisher = "The Institute of Mathematical Statistics",
   title = "Valid post-selection inference",
   url = "http://dx.doi.org/10.1214/12-AOS1077",
   volume = "41",
   year = "2013"
}

@book{hsu,
  title={Multiple Comparisons: Theory and Methods},
  author={Hsu, J.},
  isbn={9780412982811},
  lccn={gb96039234},
  url={https://books.google.com/books?id=8AK8PUbw3lsC},
  year={1996},
  publisher={Taylor \& Francis}
}

@misc{myoutlier,
   author   = "Peter Filzmoser and Moritz Gschwandtner",
   title    = "Multivariate Outlier Detection Based on Robust Methods",
   howpublished      =
   "\url{https://cran.r-project.org/web/packages/mvoutlier/index.html}"
}

@book{christensen,
  title={Log-Linear Models},
  author={Christensen, R.},
  isbn={9781475741117},
  lccn={90042812},
  series={Springer Texts in Statistics},
  url={https://books.google.com/books?id=AIzgBwAAQBAJ},
  year={2013},
  publisher={Springer New York}
}

@misc{nih,
   author = {{National Institutes of Health}},
   title    = "Rigor and Reproducibility",
   howpublished      =
   {https://grants.nih.gov/reproducibility/index.htm}
}

@article{siegfried,
    author = {Siegfried, Tom},
    day = {17},
    journal = {Science News},
    month = march,
    title = {{P value ban: small step for a journal, giant leap for
       science}},
    year = {2015}
}

