Jonathan Cooper: Publications

[1]	Chaste: a test-driven approach to software development for biological modelling J. Pitt-Francis et al. Computer Physics Communications, Submitted. Details \| BibTeX

[2]

Chaste: Incorporating a Novel Multiscale Spatial and Temporal Algorithm into a Large Scale Open Source Library

Bernabeu MO, Bordas R, Pathmanathan P, Pitt-Francis J, Cooper J, Garny A, Gavaghan DJ, Rodriguez B, Southern JA, Whiteley JP

Phil Trans Roy Soc (A), Vol. 367, No. 1895, pages 1907-1930. May 2009.

Details | BibTeX | DOI (10.1098/rsta.2008.0309)

[3]

Chaste: A test-driven approach to software development for biological modelling

J Pitt-Francis, P Pathmanathan, MO Bernabeu, R Bordas, J Cooper, AG Fletcher, GR Mirams, P Murray, JM Osborne, A Walter, SJ Chapman, A Garny, I van Leeuwen, PK Maini, B RodrÃguez, SL Waters, JP Whiteley, HM Byrne, DJ Gavaghan

Computer Physics Communications, Vol. (in press). 2009.

Details | BibTeX

[4]	A computational study of discrete mechanical tissue models P Pathmanathan et al. Physical Biology, Vol. 6, No. 3, 2009. Details \| BibTeX \| DOI (10.1088/1478-3975/6/3/036001)

[5]

An integrative computational model for intestinal tissue renewal

IMM van Leeuwen, GR Mirams, A Walter, A Fletcher, P Murray, J Osborne, S Varma, SJ Young, J Cooper, B Doyle, J Pitt-Francis, L Momtahan, P Pathmanathan, JP Whiteley, SJ Chapman, DJ Gavaghan, OE Jensen, JR King, PK Maini, SL Waters, HM Byrne

Cell Proliferation, 2009.

Details | BibTeX

[6]	Automatic Validation and Optimisation of Biological Models Jonathan Cooper PhD Thesis, 2009. Details \| BibTeX \| Link

[7]

Chaste: Using Agile Programming Techniques to Develop Computational Biology Software

J Pitt-Francis, MO Bernabeu, JC, A Garny, L Momtahan, J Osborne, P Pathmanathan, B Rodriguez, JP Whiteley, DJ Gavaghan

Philosophical Transactions of the Royal Society A, Vol. 366(1878), pages 3111-3136. 2008.

Details | BibTeX

[8]	CellML and Associated Tools and Techniques Alan Garny et al. Phil Trans Roy Soc A, Vol. 366, No. 1878, pages 3017—3043. 2008. Details \| BibTeX \| DOI (10.1098/rsta.2008.0094)

[9]

Chaste: using agile programming techniques to develop computational biology software

Joe Pitt-Francis, Miguel O. Bernabeu, Jonathan Cooper, Alan Garny, Lee Momtahan, James Osborne, Pras Pathmanathan, Blanca Rodriguez, Jonathan P. Whiteley, David J. Gavaghan

Phil Trans Roy Soc A, Vol. 366, No. 1878, pages 3111-3136. 2008.

Details | BibTeX | DOI (10.1098/rsta.2008.0096)

[10]	A model-driven approach to automatic conversion of physical units Jonathan Cooper, Steve McKeever Softw. Pract. Exper. Vol. 38, No. 4, pages 337-359. 2008. Details \| BibTeX \| DOI (10.1002/spe.828)

[11]	Experience Report: A Haskell interpreter for CellML Jonathan Cooper, Steve McKeever pages 247—250. New York, NY, USA. October 2007. ACM Press. Details \| BibTeX \| DOI (10.1145/1291151.1291190)

[12]

On the application of partial evaluation to the optimisation of cardiac electrophysiological simulations

Jonathan Cooper, Steve McKeever and Alan Garny

In PEPM '06: Proceedings of the 2006 ACM SIGPLAN Symposium on Partial Evaluation and Semantics-Based Program Manipulation pages 12—20. New York, NY, USA. 2006. ACM Press.

Details | BibTeX | DOI (10.1145/1111542.1111546)

[13]	Details \| BibTeX