Geodesic
Using R to Build and Assess Network Models in Biology
G. Hartvigsen1
1 Department of Biology, SUNY Geneseo, Geneseo, NY 14454 USA
Mathematical modelling of natural phenomena, Tome 6 (2011) no. 6, pp. 61-75.

Voir la notice de l'article provenant de la source EDP Sciences

In this paper we build and analyze networks using the statistical and programming environment R and the igraph package. We investigate random, small-world, and scale-free networks and test a standard problem of connectivity on a random graph. We then develop a method to study how vaccination can alter the structure of a disease transmission network. We also discuss a variety of other uses for networks in biology.
DOI : 10.1051/mmnp/20116604

G. Hartvigsen 1

1 Department of Biology, SUNY Geneseo, Geneseo, NY 14454 USA 
@article{MMNP_2011_6_6_a3,
     author = {G. Hartvigsen},
     title = {Using {R} to {Build} and {Assess} {Network} {Models} in {Biology}},
     journal = {Mathematical modelling of natural phenomena},
     pages = {61--75},
     publisher = {mathdoc},
     volume = {6},
     number = {6},
     year = {2011},
     doi = {10.1051/mmnp/20116604},
     language = {en},
     url = {http://geodesic.mathdoc.fr/articles/10.1051/mmnp/20116604/}
}
TY  - JOUR
AU  - G. Hartvigsen
TI  - Using R to Build and Assess Network Models in Biology
JO  - Mathematical modelling of natural phenomena
PY  - 2011
SP  - 61
EP  - 75
VL  - 6
IS  - 6
PB  - mathdoc
UR  - http://geodesic.mathdoc.fr/articles/10.1051/mmnp/20116604/
DO  - 10.1051/mmnp/20116604
LA  - en
ID  - MMNP_2011_6_6_a3
ER  - 
%0 Journal Article
%A G. Hartvigsen
%T Using R to Build and Assess Network Models in Biology
%J Mathematical modelling of natural phenomena
%D 2011
%P 61-75
%V 6
%N 6
%I mathdoc
%U http://geodesic.mathdoc.fr/articles/10.1051/mmnp/20116604/
%R 10.1051/mmnp/20116604
%G en
%F MMNP_2011_6_6_a3
G. Hartvigsen. Using R to Build and Assess Network Models in Biology. Mathematical modelling of natural phenomena, Tome 6 (2011) no. 6, pp. 61-75. doi : 10.1051/mmnp/20116604. http://geodesic.mathdoc.fr/articles/10.1051/mmnp/20116604/

[1] R. Albert, A.-L. Barabási Reviews of Modern Physics 2002 47 97

[2] G. Chartrand. Introductory graph theory. Dover Publications, 1985.

[3] M. Crawley. The R book. John Wiley Sons, 2007.

[4] P. Dalgaard. Introductory Statistics with R, 2/e. Springer, 2008.

[5] P. Erdös, A. Rényi Publicationes Mathematicae 1959 290 297

[6] L. Euler Commentarii academiae scientiarum Petropolitanae 1741 128 140

[7] G. Hartvigsen, J.M. Dresch, A.L. Zielinski, A.J. Macula, C.C. Leary Journal of Theoretical Biology 2007 205 213

[8] W.O. Kermack, A.G. Mckendrick Proceedings of the Royal Society of London A 1927 700 721

[9] M.E. Newman, A.-L. Barabási, D.J. Watts. The Structure and Dynamics of Networks. Princeton University Press, 2006.

[10] M.E. Newman. Networks: an Introduction. Oxford University Press, 2010.

[11] R Development Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing (2010), Vienna, Austria. URL http://www.R-project.org/.

[12] R. Solomonoff, A. Rapoport Bulletin of Mathematical Biophysics 1951 107

[13] D.J. Watts, S.H. Strogatz Nature 1998 440 442

[14] A.F. Zuur, E.N. Ieno, E.H.W.G. Meesters. A Beginner’s Guide to R, Springer, 2009.

Cité par Sources :