TY - JOUR A1 - Grimm, Volker A1 - Berger, Uta A1 - Bastiansen, Finn A1 - Eliassen, Sigrunn A1 - Ginot, Vincent A1 - Giske, Jarl A1 - Goss-Custard, John A1 - Grand, Tamara A1 - Heinz, Simone K. A1 - Huse, Geir A1 - Huth, Andreas A1 - Jepsen, Jane U. A1 - Jorgensen, Christian A1 - Mooij, Wolf M. A1 - Mueller, Birgit A1 - Piou, Cyril A1 - Railsback, Steven Floyd A1 - Robbins, Andrew M. A1 - Robbins, Martha M. A1 - Rossmanith, Eva A1 - Rueger, Nadja A1 - Strand, Espen A1 - Souissi, Sami A1 - Stillman, Richard A. A1 - Vabo, Rune A1 - Visser, Ute A1 - DeAngelis, Donald L. T1 - A standard protocol for describing individual-based and agent-based models JF - Ecological modelling : international journal on ecological modelling and engineering and systems ecolog N2 - Simulation models that describe autonomous individual organisms (individual based models, IBM) or agents (agent-based models, ABM) have become a widely used tool, not only in ecology, but also in many other disciplines dealing with complex systems made up of autonomous entities. However, there is no standard protocol for describing such simulation models, which can make them difficult to understand and to duplicate. This paper presents a proposed standard protocol, ODD, for describing IBMs and ABMs, developed and tested by 28 modellers who cover a wide range of fields within ecology. This protocol consists of three blocks (Overview, Design concepts, and Details), which are subdivided into seven elements: Purpose, State variables and scales, Process overview and scheduling, Design concepts, Initialization, Input, and Submodels. We explain which aspects of a model should be described in each element, and we present an example to illustrate the protocol in use. In addition, 19 examples are available in an Online Appendix. We consider ODD as a first step for establishing a more detailed common format of the description of IBMs and ABMs. Once initiated, the protocol will hopefully evolve as it becomes used by a sufficiently large proportion of modellers. (c) 2006 Elsevier B.V. All rights reserved. KW - individual-based model KW - agent-based model KW - model description KW - scientific communication KW - standardization Y1 - 2006 U6 - https://doi.org/10.1016/j.ecolmodel.2006.04.023 SN - 0304-3800 VL - 198 SP - 115 EP - 126 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Abboud, Ali A1 - Send, Sebastian A1 - Pashniak, N. A1 - Leitenberger, Wolfram A1 - Ihle, Sebastian A1 - Huth, M. A1 - Hartmann, Robert A1 - Strüder, Lothar A1 - Pietsch, Ullrich T1 - Sub-pixel resolution of a pnCCD for X-ray white beam applications JF - Journal of instrumentation N2 - A new approach to achieve sub-pixel spatial resolution in a pnCCD detector with 75 x 75 mu m(2) pixel size is proposed for X-ray applications in single photon counting mode. The approach considers the energy dependence of the charge cloud created by a single photon and its split probabilities between neighboring pixels of the detector based on a rectangular model for the charge cloud density. For cases where the charge of this cloud becomes distributed over three or four pixels the center position of photon impact can be reconstructed with a precision better than 2 mu m. The predicted charge cloud sizes are tested at selected X-ray fluorescence lines emitting energies between 6.4 keV and 17.4 keV and forming charge clouds with size (rms) varying between 8 mu m and 10 mu m respectively. The 2 mu m enhanced spatial resolution of the pnCCD is verified by means of an x-ray transmission experiment throughout an optical grating. KW - Solid state detectors KW - Interaction of radiation with matter KW - Detector modelling and simulations II (electric fields, charge transport, multiplication and induction, pulse formation, electron emission, etc) Y1 - 2013 U6 - https://doi.org/10.1088/1748-0221/8/05/P05005 SN - 1748-0221 VL - 8 IS - 3 PB - IOP Publ. Ltd. CY - Bristol ER - TY - JOUR A1 - Send, Sebastian A1 - Abboud, Ali A1 - Hartmann, Robert A1 - Huth, M. A1 - Leitenberger, Wolfram A1 - Pashniak, N. A1 - Schmidt, J. A1 - Strüder, Lothar A1 - Pietsch, Ullrich T1 - Characterization of a pnCCD for applications with synchrotron radiation JF - Nuclear instruments & methods in physics research : a journal on accelerators, instrumentation and techniques applied to research in nuclear and atomic physics, materials science and related fields in physics ; A, Accelerators, spectrometers, detectors and associated equipment N2 - In this work we study the response of a pnCCD by means of X-ray spectroscopy in the energy range between 6 key and 20 key and by Laue diffraction techniques. The analyses include measurements of characteristic detector parameters like energy resolution, count rate capability and effects of different gain settings. The limit of a single photon counting operation in white beam X-ray diffraction experiments is discussed with regard to the occurrence of pile-up events, for which the energy information about individual photons is lost. In case of monochromatic illumination the pnCCD can be used as a fast conventional CCD with a charge handling capacity (CHC) of about 300,000 electrons per pixel. If the CHC is exceeded, any surplus charge will spill to neighboring pixels perpendicular to the transfer direction due to electrostatic repulsion. The possibilities of increasing the number of storable electrons are investigated for different voltage settings by exposing a single pixel with X-rays generated by a microfocus X-ray source. The pixel binning mode is tested as an alternative approach that enables a pnCCD operation with significantly shorter readout times. KW - pnCCD KW - X-ray spectroscopy KW - X-ray imaging KW - Energy-dispersive Laue diffraction Y1 - 2013 U6 - https://doi.org/10.1016/j.nima.2013.01.044 SN - 0168-9002 VL - 711 IS - 5 SP - 132 EP - 142 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Jeltsch, Florian A1 - Blaum, Niels A1 - Brose, Ulrich A1 - Chipperfield, Joseph D. A1 - Clough, Yann A1 - Farwig, Nina A1 - Geissler, Katja A1 - Graham, Catherine H. A1 - Grimm, Volker A1 - Hickler, Thomas A1 - Huth, Andreas A1 - May, Felix A1 - Meyer, Katrin M. A1 - Pagel, Jörn A1 - Reineking, Björn A1 - Rillig, Matthias C. A1 - Shea, Katriona A1 - Schurr, Frank Martin A1 - Schroeder, Boris A1 - Tielbörger, Katja A1 - Weiss, Lina A1 - Wiegand, Kerstin A1 - Wiegand, Thorsten A1 - Wirth, Christian A1 - Zurell, Damaris T1 - How can we bring together empiricists and modellers in functional biodiversity research? JF - Basic and applied ecology : Journal of the Gesellschaft für Ökologie N2 - Improving our understanding of biodiversity and ecosystem functioning and our capacity to inform ecosystem management requires an integrated framework for functional biodiversity research (FBR). However, adequate integration among empirical approaches (monitoring and experimental) and modelling has rarely been achieved in FBR. We offer an appraisal of the issues involved and chart a course towards enhanced integration. A major element of this path is the joint orientation towards the continuous refinement of a theoretical framework for FBR that links theory testing and generalization with applied research oriented towards the conservation of biodiversity and ecosystem functioning. We further emphasize existing decision-making frameworks as suitable instruments to practically merge these different aims of FBR and bring them into application. This integrated framework requires joint research planning, and should improve communication and stimulate collaboration between modellers and empiricists, thereby overcoming existing reservations and prejudices. The implementation of this integrative research agenda for FBR requires an adaptation in most national and international funding schemes in order to accommodate such joint teams and their more complex structures and data needs. KW - Biodiversity theory KW - Biodiversity experiments KW - Conservation management KW - Decision-making KW - Ecosystem functions and services KW - Forecasting KW - Functional traits KW - Global change KW - Monitoring programmes KW - Interdisciplinarity Y1 - 2013 U6 - https://doi.org/10.1016/j.baae.2013.01.001 SN - 1439-1791 VL - 14 IS - 2 SP - 93 EP - 101 PB - Elsevier CY - Jena ER -