GillespieSSA

Vanilla C code for the Stochastic Simulation Algorithm

October 24, 2011 | 0 Comments

The Gillespie stochastic simulation algorithm (SSA) is the gold standard for simulating state-based stochastic models. If you are a R buff, a SSA novice and want to get quickly up and running stochastic models (in particular ecological models) that are not … Continue reading → [Read more...]

GillespieSSA 0.5-4 is released

August 16, 2010 | 0 Comments

I just uploaded GillespieSSA 0.5-4 to CRAN. It should be  just a matter of days before it has propagated itself across all mirrors. This release consists of minor revisions with no (intended) changes in functionality. The main change (and it is … Continue reading →
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Paper on the Gillespie Stochastic Simulation Algorithm in press

February 1, 2008 | 0 Comments

Just got news that my revisions to the reviewer’s comments on my paper GillespieSSA: Implementing the Gillespie Stochastic Simulation Algorithm in R were accepted. Hence, this paper is not officially in press in the Journal of Statistical Software. Here’s the … Continue reading →
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GillespieSSA 0.5-1 is released

January 15, 2008 | 0 Comments

I just uploaded GillespieSSA 0.5-1 to CRAN. Now it’s just a matter of days before it has propagated itself across all CRAN mirrors. This version consists primarily of revisions I made in response to the reviewer comments on the paper … Continue reading →
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GillespieSSA 0.3-1 released

October 4, 2007 | 0 Comments

I recently rolled up the new version of the GillespieSSA package, version 0.3-1. The tar ball of the new version is posted on its web page (here). I also submitted it to CRAN so in (due time) it should appear … Continue reading → [Read more...]

GillespieSSA on CRAN

September 21, 2007 | 0 Comments

So it’s official – my R package GillespieSSA has been posted to the official list of packages on CRAN (The Comprehensive R Archive Network). Check it out. Now back to my manuscript. Over the last few days I have been … Continue reading →
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GillespieSSA 0.2-0 is released

September 19, 2007 | 0 Comments

Just finished the new version of the GillespieSSA package. The tar ball of the new version is posted on its web page (here). I also submitted it to CRAN so in (due time) it should appear on the official R … Continue reading →
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119 days of number crunching…

August 23, 2007 | 0 Comments

Just checked on the 70000+ simulations I submitted to the Cow last night. The purpose of these runs is to explore a given system (the logistic growth model in this case) using different implementations of the stochastic simulation algorithm (aka … Continue reading →
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Cow chewing on GillespieSSA

August 22, 2007 | 0 Comments

Sorry blog for the long silence. Lately I have been juggling several time critical projects and there hardly seems to be time for such mundane activities such as sleeping, eating, never mind shaving (someone pointed out that I am starting … Continue reading →
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GillespieSSA 0.1-0 is released

August 19, 2007 | 0 Comments

I just submitted the first release of the GillespieSSA package to CRAN. After much debating I finally decided to adhere to the unwritten R version numbering policy of starting really really low (and asymptotically approaching 1.0-0) . Thus, the first … Continue reading →
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Looking for a few good beta testers

August 7, 2007 | 0 Comments

Sitting in a dreary hotel room in San Jose with Interstate 101 on my left and a burger joint/truck stop on my right (see previous post Report from the meeting of the Ecological Society of America in San Jose for … Continue reading →
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GillespieSSA poster

August 3, 2007 | 0 Comments

Finished my poster for the useR! 2007 meeting. It is also posted on the GillespieSSA web page as part of the package documentation. Now, all I have to do is show it off in Ames next week…, oh, and I … Continue reading →
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Adaptive tau-leaping in SSA

July 26, 2007 | 0 Comments

Just a brief update on my activities 11 days before the R package GillespieSSA is to be released. I have been hacking away on the code, debugging, and running test simulations like there is no tomorrow. The last SSA implementation … Continue reading → [Read more...]

Abstract for useR! 2007 poster

July 15, 2007 | 0 Comments

Here’s my submitted abstract for the poster I will be presenting at the useR! 2007 meeting in August. GillespieSSA: A stochastic simulation package for R Mario Pineda-Krch Center for Animal Disease Modeling and Surveillance University of California, Davis Abstract Stochastic … Continue reading →
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