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Link to the code used in: Alexander G. Rakowski, Petar Velickovic, Enrico Dall’Ara, Pietro Liò -) Computer Laboratory, University of Cambridge, Cambridge, Cambs, United Kingdom-) Department of Oncology & Metabolism, University of Sheffield, Sheffield, SouthYorkshire, United Kingdom ChronoMID - cross-modal neural networks for 3-D temporal medical imaging data; Plos One 2020. The folder includes the codes used to process the images. A "README.txt" file is added to describe how to run the analyses.The whole dataset is stored in the University of Sheffield file-store at the link: https://web-unidrive.sheffield.ac.uk/shared/multisim2/WP7/ For further information please contact Dr Enrico Dall'Ara: e.dallara@sheffield.ac.uk
Data Types:
  • Software/Code
OpenMAS is an open source multi-agent simulator based in Matlab for the simulation of decentralized intelligent systems defined by arbitrary behaviours and dynamics. This object orientated simulator can be used to create arbitrary scenarios with various agents and objectives. By assembling new agent definitions the user is able experiment with multi-agent systems in 2D or 3D, or simply use an existing agent from the object library. Here, a wide range of popular behaviours, collision avoidance and flocking routines are predefined. Once defined the user is then able to take advantage of a selection of automated analysis tools and generated figures.
Data Types:
  • Software/Code
Link to the code used in: Alexander G. Rakowski, Petar Velickovic, Enrico Dall’Ara, Pietro Liò -) Computer Laboratory, University of Cambridge, Cambridge, Cambs, United Kingdom-) Department of Oncology & Metabolism, University of Sheffield, Sheffield, SouthYorkshire, United Kingdom ChronoMID - cross-modal neural networks for 3-D temporal medical imaging data; Plos One 2020. The folder includes the codes used to process the images. A "README.txt" file is added to describe how to run the analyses.The whole dataset is stored in the University of Sheffield file-store at the link: https://web-unidrive.sheffield.ac.uk/shared/multisim2/WP7/ For further information please contact Dr Enrico Dall'Ara: e.dallara@sheffield.ac.uk
Data Types:
  • Software/Code
OpenMAS is an open source multi-agent simulator based in Matlab for the simulation of decentralized intelligent systems defined by arbitrary behaviours and dynamics. This object orientated simulator can be used to create arbitrary scenarios with various agents and objectives. By assembling new agent definitions the user is able experiment with multi-agent systems in 2D or 3D, or simply use an existing agent from the object library. Here, a wide range of popular behaviours, collision avoidance and flocking routines are predefined. Once defined the user is then able to take advantage of a selection of automated analysis tools and generated figures.
Data Types:
  • Software/Code
This is source code of the formal proof of the Small-gain theorem in Isabelle/HOL theorem prover. This code is part of the paper "Towards Formal Proofs of Feedback Control Theory" presented in System Theory, Control and Computing (ICSTCC) conference published in IEEE - DOI: 10.1109/ICSTCC.2017.8107009 Note: Put both files "L2Norm_Integral.thy" and "Minkowski_Integral_Inequality.thy" in the main Isabelle's directory before loading the main theorem file "Small_Gain_Theorem.thy".
Data Types:
  • Software/Code
MuMoT (Multiscale Modelling Tool) is computational software running under Jupyter notebooks to provide interactive advanced mathematical and numerical analysis techniques to non-expert and expert users, without the need to write code or equations.
Data Types:
  • Software/Code
The file contains the codes and algorithms for the Mech-ABM. These include the descriptions of the algorithm to execute the mechanical model (Mech-), which deals with the biomechanics of the bone tissue; and the agent-based model (-ABM) which simulates the intercellular events of mechanotransduction after the activation of integrins (the predominant mechanoreceptors). The mechanical model is the .cpp with its application compute. The ABM files are file transition function code (.c), the agent-memory parameters (.xml) and 0.xml which include the initial state at t0. 0.xml include those for the homogeneous sensitive and ultrasensitive models and the heterogeneous models (10%-HM and 1%-HM). The files necessary for coupling the Mech- and the ABM models were included in the file "Essential Files to run hybrid model"
Data Types:
  • Software/Code
Interactive web application accompanying paper "Quantifying the benefits of using decision models with response time and accuracy data" The code associated with the application is contained in the `app.R` script. Dependencies are specified in `install.R` and can be installed by sourcing the script. The data powering the app is a subset of the data presented in the paper and can be found in `data/powersim.rda`. The raw subset of the data is contained in `raw-data/summary.csv` and the processing code into the tidied `.rda` format can be found in `raw-data/create-app-data.R`. Licenses Code See the LICENSE file Data : CC-BY-4.0 Copyright (c) 2018 Tom Stafford.
Data Types:
  • Software/Code
The Jupyter notebook in this repository generates the graphs for the paper, "Sensitivity Calculations of High-Speed Optical Receivers based on Electron-APDs" published in the IEEE Journal of Lightwave Technology. The file to generate the figures is the Jupyter notebook file "Figures for Sensitivity Calculations of High-Speed Optical Receivers based on Electron-APDs.ipynb". This generates all the figures. The notebook must be used in conjunction with the data in the corresponding data archive "Data for paper: "Sensitivity Calculations of High-Speed Optical Receivers based on Electron-APDs"" (DOI: 10.15131/shef.data.9959468)
Data Types:
  • Software/Code
This is a MATLAB package for inferring growth related parameters describing the shape and development of mollusc shells. It has an interactive fitting procedure and gives 3D models of the shells as part of the output.
Data Types:
  • Software/Code