Warning: This page is no longer being updated. The new public homepage for AcCoRD (Actor-based Communication via Reaction-Diffusion) is being hosted at Memorial University.

This page lists AcCoRD publications, including papers that describe AcCoRD or used it for simulations. If you use AcCoRD in your own work, then I please ask that you cite the primary reference. I would also be happy to add a link to your work here.

Primary AcCoRD Publication

The paper "Simulating with AcCoRD: Actor-Based Communication via Reaction-Diusion" (paper is published here, or is also available from arXiv) is the primary reference for AcCoRD. There's also a YouTube Video Abstract. If you use AcCoRD in your work, then please cite this paper. It provides an overview of AcCoRD, including:

• Motivation for developing a generic reaction-diffusion solver for communication analysis
• Details of all simulation algorithms
• Derivation of computational complexity
• Verification of accuracy by comparing simulation output with analytical expressions
• Insights into appropriate simulation parameters

This paper is in the March 2017 issue of Nano Communication Networks (vol. 11, pp. 44-75). It includes videos in the supplementary materials. A playlist of these videos is also available here: https://www.youtube.com/playlist?list=PLZ7uYXG-7XF8UyhFrIuQIiZig1XA89e3i

Supporting AcCoRD Publications

Papers that describe new features added to AcCoRD:

• Y. Wang, A. Noel, and N. Yang, A Novel a priori Simulation Algorithm for Absorbing Receivers in Diffusion-Based Molecular Communication Systems, IEEE Transactions on NanoBioscience, vol. 17, no. 3, pp. 437-447, Jul. 2019 (arXiv preprint). This paper describes an efficient algorithm for the simulation of microscopic absorbing surfaces. The implementation was added in AcCoRD v1.4.
• A. Noel and D. Makrakis, Algorithm for Mesoscopic Advection-Diffusion, IEEE Transactions on NanoBioscience, vol. 17, no. 4, pp. 543-554, Oct. 2018 (arXiv preprint). This paper describes the integration of advection (flow) into the reaction-diffusion simulations of the mesoscopic regime. The implementation was added in AcCoRD v1.1.

Portion's of AcCoRD's design was initially motivated in the following papers:

• A. Noel, K. C. Cheung, and R. Schober, On the Statistics of Reaction-Diffusion Simulations for Molecular Communication, in Proc. ACM NANOCOM 2015, Sep. 2015. (arXiv preprint). The simulations in this paper were completed with AcCoRD v0.1, which was an early 2D build.
• A. Noel, K. C. Cheung, and R. Schober, Multi-Scale Stochastic Simulation for Diffusive Molecular Communication, in Proc. IEEE ICC 2015, pp. 2712--2718, Jun. 2015. (arXiv preprint). The simulations in this paper were completed with proof-of-concept MATLAB code that implemented hybrid diffusion with rudimentary transition rules.

Publications that Used AcCoRD

The following papers did not discuss AcCoRD's implementation but used it for some or all of their simulations:

• Y. Deng, A. Noel, W. Guo, A. Nallanathan, and M. Elkashlan, Analyzing Large-Scale Molecular Communication Systems via 3D Stochastic Geometry, IEEE Transactions on Molecular, Biological, and Multi-Scale Communications, vol. 3, no. 2, pp. 118-133, Jun. 2017 (arXiv preprint). As in corresponding conference paper below, this paper derived the channel impulse of a large number of randomly-placed transmitters that release molecules simultaneously. It used AcCoRD v0.5.
• A. Noel and A. W. Eckford, Asynchronous Peak Detection for Demodulation in Molecular Communication, in Proc. IEEE ICC 2017, May 2017. This paper proposed a simple detector that measures the largest concentration observed by the receiver. It used AcCoRD v0.7.0.1.
• A. Noel, D. Makrakis, and A. Hafid, Channel Impulse Responses in Diffusive Molecular Communication with Spherical Transmitters, in Proc. CSIT Biennial Symposium on Communications 2016, Jun. 2016. This paper compared the channel impulse response of a point transmitter with that of a transmitter that initializes molecules over a spherical volume. It used AcCoRD v0.5.
• A. Noel, Y. Deng, D. Makrakis, and A. Hafid, Active Versus Passive: Receiver Model Transforms for Diffusive Molecular Communication, in Proc. IEEE GLOBECOM 2016, Dec. 2016. This paper compared a passive receiver model with an absorbing surface model and proposed transforms to convert between them. It used AcCoRD v0.5.
• Y. Deng, A. Noel, W. Guo, A. Nallanathan, and M. Elkashlan, Stochastic Geometry Model for Large-Scale Molecular Communication Systems, in Proc. IEEE GLOBECOM 2016, Dec. 2016. As in corresponding journal paper above, this paper derived the channel impulse of a large number of randomly-placed transmitters that release molecules simultaneously. It used AcCoRD v0.5.