Msetool: Management Strategy Evaluation Toolkit

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Msetool: Management Strategy Evaluation Toolkit

Package ‘MSEtool’ August 13, 2021 Title Management Strategy Evaluation Toolkit Version 3.2.0 Description Development, simulation testing, and implementation of management procedures for fisheries (see Carruthers & Hordyk (2018) <doi:10.1111/2041-210X.13081>). License GPL-3 Encoding UTF-8 LazyData true RoxygenNote 7.1.1 Depends R (>= 3.5.0), snowfall Imports abind, dplyr, methods, grDevices, ggplot2, parallel, Rcpp, stats, utils Suggests boot, broom, covr, crayon, devtools, DT, fmsb, ggrepel, gridExtra, kableExtra, knitr, MASS, mvtnorm, openxlsx, purrr, r4ss, readxl, reshape2, rfishbase, rmarkdown, shiny, testthat, tidyr LinkingTo Rcpp, RcppArmadillo BugReports https://github.com/Blue-Matter/MSEtool/issues NeedsCompilation yes Author Adrian Hordyk [aut, cre], Quang Huynh [aut], Tom Carruthers [aut], Chris Grandin [ctb] (iSCAM functions) Maintainer Adrian Hordyk <[email protected]> Repository CRAN Date/Publication 2021-08-13 10:10:17 UTC 1 2 R topics documented: R topics documented: Albacore . .5 Albacore_TwoFleet . .6 applyMMP . .7 applyMP . .7 Atlantic_mackerel . .8 avail.............................................9 boxplot.Data . 10 calcRefYield . 10 CALsimp . 11 Can ............................................. 12 CheckDuplicate . 13 CheckMPs . 13 checkMSE . 14 Choose . 15 CombineMMP . 16 Converge . 16 Cos_thresh_tab . 18 cparscheck . 18 Cplot . 19 Data-class . 20 Data2csv . 24 DataDescription . 24 DataDir . 25 DataInit . 25 DataSlots . 26 Data_xl . 27 DecE_Dom . 28 DFO_bar . 29 DFO_hist . 30 DFO_plot . 30 DFO_plot2 . 31 DFO_proj . 31 DFO_quant . 32 DFO_report . 33 DFO_spider . 33 DFO_tab . 34 DFO_tab_formatted . 34 DLMDataDir . 35 dnormal . 36 Dom............................................. 36 expandHerm . 37 Fease . 38 Fleet-class . 39 FleetDescription . 41 FMSYref . 42 Generic_Obs . 43 R topics documented: 3 getclass . 44 getDataList . 45 getfirstlev . 45 getmov2 . 46 getsel . 47 Hist-class . 47 hist2 . 49 HistDescription . 50 Imp-class . 50 ImpDescription . 52 initialize-methods . 52 Input . 53 iSCAM . 53 iSCAM2OM . 55 iSCAMcomps . 57 iSCAMinds . 57 joinData . 58 join_plots . 58 Kplot . 59 ldim............................................. 60 LH2OM . 60 LHdatabase . 63 makemov . 63 makeTransparent . 64 ML2D............................................ 64 MMSE-class . 65 MOM-class . 67 movestockCPP . 68 movfit_Rcpp . 69 MPCalcsNAs . 69 MPtype . 70 MSE-class . 70 MSEDescription . 72 MSEextra . 72 MSYCalcs . 73 multiData . 74 multiDataS . 74 multidebug . 75 NIL ............................................. 75 NOAA_plot . 76 Obs-class . ..

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A Framework for Semantic Publishing of Modular Content Objects
A Framework for Semantic Publishing of Modular Content Objects Catalin David, Deyan Ginev, Michael Kohlhase, Bogdan Matican, Stefan Mirea Computer Science, Jacobs University, Germany; http://kwarc.info/ Abstract. We present the Active Documents approach to semantic pub- lishing (semantically annotated documents associated with a content commons that holds the background ontologies) and the Planetary system (as an active document player). In this paper we explore the interaction of content object reuse and context sensitivity in the presentation process that transforms content modules to active documents. We propose a \separate compilation and dynamic linking" regime that makes semantic publishing of highly struc- tured content representations into active documents tractable and show how this is realized in the Planetary system. 1 Introduction Semantic publication can range from merely equipping published documents with RDFa annotations, expressing metadata or inter-paper links, to frame- works that support the provisioning of user-adapted documents from content representations and instrumenting them with interactions based on the seman- tic information embedded in the content forms. We want to propose an entry to the latter category in this paper. Our framework is based on semantically anno- tated documents together with semantic background ontologies (which we call the content commons). This information can then be used by user-visible, se- mantic services like program (fragment) execution, computation, visualization, navigation, information aggregation and information retrieval (see Figure 5). Finally a document player application can embed these services to make docu- ments executable. We call this framework the Active Documents Paradigm (ADP), since documents can also actively adapt to user preferences and envi- ronment rather than only executing services upon user request.
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