Microbial Modelling

• Notes on “Linking physiology to ecology: towards a new generation of plankton models” by Allen and Polimene (2011)
• Notes on “Marine viruses and their biogeochemical and ecological effects” by Furhman (1999)
• Notes on “Viruses in the sea” by Suttle (2005) and “Marine viruses – Major players in the global ecosystem” by Suttle (2007)
• Notes on “Viruses and nutrient cycles in the sea” by Wilhelm and Suttle (1999)
• Notes on “Theoretical models for the control of baterial growth rate, abundance, diversity and carbon demand” by Thingstad and Lignell (1997)
• Notes on “Virus-induced transfer of organic carbon between marine bacteria in a model community” by Middelboe et al. (2003)
• Notes on “Ecology of prokaryotic viruses” by Weinbauer (2004)
• Notes on “Power law rank-abundance models for marine phage communities” by Hoffman et al. (2007)
• Notes on “Explaining microbial population genomics through phage predation” by Rodrigues-Valera et al. (2009)
• Notes on “Viral infection as a regulator of oceanic phytoplankton populations” by Rhodes et al. (2008)
• 10/13/2011: Notes on evolution course
• 10/26/2011: A critic of Gaia by Kirchner
• 11/28/2011: Notes on The Selfish Gene by Richard Dawkins
• 11/29/2011 (started on): Notes on the literature on phage-host dynamics
• 05/09/2012: Brief review of the literature concerning ecosystem modelling with a focus on evolution and viruses
• 10.15.2012: First runs with the virus model of Rhodes-Truscott-Martin model 2
• 10.15.2012: How to run a simulation with Rhodes-Truscott-Martin model 2
• 11.05.2012: Reproducing Fig. 1 of Richards and Brentnall (2006)
• 11.02.2012: First analysis of run 001
• 02.01.2013: Second analysis of run 001
• 02.05.2013: Third analysis of run 001
• 02.14.2013: Fourth analysis of run 001
• 03.04.2013: Fourth analysis of run 001. Part 2
• 03.05.2013: Fourth analysis of run 001. Part 3
• 03.06.2013: Fifth analysis of run 001
• 03.08.2013: Sixth analysis of run 001
• 03.15.2013: Sixth analysis of run 001 - Recap
• 03.19.2013: Sixth analysis of run 001 - Extension
• 03.19.2013: A summary so far of our recent modeling study
• 05.27.2013: Trajectories around equilibrium values (no Z)
• 08.31.2013: First runs with spatial nonuniformity with and without diffusion