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all things organic and algebraic
csoeder
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- January 20, 2013
- 12:34 PM
- 140 views
ThermoPoker Dot Viz: using pygame animations to understand iterated games
by csoeder in Topologic Oceans
I’m revisiting some older research of mine, so that I can talk a little bit about some data visualization I did along the way. If you frequent TriZPUG or the SplatSpace, you might have seen my original presentation, but In Case You Missed It… You might remember a while back I got interested in researching [...]... Read more »
Annila, A., & Salthe, S. (2009) Economies Evolve by Energy Dispersal. Entropy, 11(4), 606-633. DOI: 10.3390/e11040606
Anttila, J., & Annila, A. (2011) Natural games. Physics Letters A, 375(43), 3755-3761. DOI: 10.1016/j.physleta.2011.08.056
- December 15, 2012
- 12:14 PM
- 224 views
Light and Noise in the Anthropocene
by csoeder in Topologic Oceans
There is a companion article exploring the issue from the perspective of environmental monitoring over at ArkFab. Human influence on the environment has increased dramatically over the last 10,000 years, to the point that some geologists have argued that human reworking of the earth defines a new geologic age, The Anthropocene. (Zalasiewicz et al, 2008) [...]... Read more »
José Alicea-Pou, Olga Viñas-Curiel, Wanda Cruz-Vizcarrondo, & Osvaldo Alomar. (2005) Monitoring of the Environmental Noise Level in San Juan, Puerto Rico. Environmental Quality Board. info:/
David Dunn, & James P. Crutchfield. (2006) Insects, Trees, and Climate: The Bioacoustic Ecology of Deforestation and Entomogenic Climate Change. Santa Fe Institute Working Paper. arXiv: q-bio/0612019v1
Fuller, R., Warren, P., & Gaston, K. (2007) Daytime noise predicts nocturnal singing in urban robins. Biology Letters, 3(4), 368-370. DOI: 10.1098/rsbl.2007.0134
Hester, K., Peltzer, E., Kirkwood, W., & Brewer, P. (2008) Unanticipated consequences of ocean acidification: A noisier ocean at lower pH. Geophysical Research Letters, 35(19). DOI: 10.1029/2008GL034913
Longcore, T., & Rich, C. (2004) Ecological Light Pollution. Frontiers in Ecology and the Environment, 2(4), 191. DOI: 10.2307/3868314
Zalasiewicz, J., Williams, M., Smith, A., Barry, T., Coe, A., Bown, P., Brenchley, P., Cantrill, D., Gale, A., Gibbard, P.... (2008) Are we now living in the Anthropocene. GSA Today, 18(2), 4. DOI: 10.1130/GSAT01802A.1
- November 19, 2012
- 01:27 AM
- 222 views
Airbag Saved My Life: the Carolina Review’s Clinical Derpitude Continues
by csoeder in Topologic Oceans
I had thought that once I graduated college, annoying student publications would quit being so… annoying. Alas, this isn’t the case. A previous article examined the quality of analysis at the Carolina Review, UNC’s ‘journal of conservative thought and opinion’; let’s see if things have approved any in the handful of years that I’ve been [...]... Read more »
Wenzel, T., & Ross, M. (2008) Safer Vehicles for People and the Planet. American Scientist, 96(2), 122. DOI: 10.1511/2008.70.3638
- July 24, 2012
- 04:22 AM
- 389 views
Global Warming Killed My Friend’s Dog
by csoeder in Topologic Oceans
I sit at the Carrboro Really Free Market, on the first caturday in July. I sit in the shade and the banners are blowing lazily in the breeze; still it’s nearly 100 degrees; the humidity jacks it up to 103, and the breeze is welcome but ineffectual. Air quality is ‘Orange’: ozone levels ‘may approach [...]... Read more »
John A. Church, & Neil J. White. (2006) A 20th century acceleration in global sea-level rise. Geophysical Research Letters. DOI: 10.1029/2005GL024826
Fortunat Joos, & Renato Spahni. (2008) Rates of change in natural and anthropogenic radiative forcing over the past 20,000 years. PNAS, 105(5). DOI: 10.1073/pnas.0707386105
Andrew C. Kemp, Benjamin P. Horton, Jeffrey P. Donnelly, Michael E. Mann, Martin Vermeer, & Stefan Rahmstorff. (2011) Climate related sea-level variations over the past two millennia . PNAS. DOI: 10.1073/pnas.1015619108
Le Conte Y, & Navajas M. (2008) Climate change: impact on honey bee populations and diseases. Revue scientifique et technique (International Office of Epizootics), 27(2), 485. PMID: 18819674
Jesse A. Logan, & James A. Powell. (2001) Ghost Forests, Global Warming . AMERICAN ENTOMOLOGIST , 47(3), 160-172. info:/
Asbury H. Sallenger Jr, Kara S. Doran, & Peter A. Howd. (2012) Hotspot of accelerated sea-level rise on the Atlantic coast of North America. Nature Climate Change. DOI: 10.1038/nclimate1597
Benjamin H Strauss, Remik Ziemlinski, Jeremy L Weiss, & Jonathan T Overpeck. (2012) Tidally adjusted estimates of topographic vulnerability to sea level rise and flooding for the contiguous United States. Environ. Res. Lett. DOI: 10.1088/1748-9326/7/1/014033
E. Zorita, T. F. Stocker, & H. von Storch1. (2008) How unusual is the recent series of warm years?. Geophysical Research Letters. DOI: 10.1029/2008GL036228
- April 28, 2012
- 03:05 AM
- 474 views
Graphing Out Loud: ups and downs
by csoeder in Topologic Oceans
A while back, we started looking at a poorly thought-out article from the website C3Headlines. C3 is starting to make a name for itself as a goldmine of climate comedy- their claims have recently been addressed at Tamino and SkepticalScience. We’re going to keep digging into C3‘s claim that carbon dioxide concentrations have been increasing linearly over [...]... Read more »
Long, S., Elizabeth A. Ainsworth, Andrew D. B. Leakey, Josef Nosberger, & Donald R. Ort. (2006) Food for Thought: Lower-Than-Expected Crop Yield Stimulation with Rising CO2 Concentrations. Science, 312(5782), 1918-1921. DOI: 10.1126/science.1114722
- April 9, 2012
- 12:53 AM
- 388 views
Mycology Symposium, Poster Session
by csoeder in Topologic Oceans
It is a lovely spring day and I am absorbing some sunlight, hanging out in the tail end of the Carrboro Really Free Market while I type up my notes on the Duke Mycology Symposium. There were a couple of posters which really caught my eye. One thing that I think is very interesting about [...]... Read more »
Cohn, J. (2008) Citizen Science: Can Volunteers Do Real Research?. BioScience, 58(3), 192. DOI: 10.1641/B580303
Randolph Nesse, & George Williams. (1994) Why We Get Sick: The New Science of Darwinian Medicine. Vintage Books: New York. info:/
- April 6, 2012
- 09:42 PM
- 318 views
Mycology Symposium, Day 2
by csoeder in Topologic Oceans
Day 2 of the Duke Mycology Symposium has wound to a close, [DAY 1 HERE] and I am sitting on my porch contemplating the afternoon’s lectures: “Pathogen recombination during the amphibian Chytridiomycosis pandemic: Why change what’s working?” A genetics perspective on Bd, a fungus responsible for widespread amphibian mortality. Apparently one of the factors in [...]... Read more »
Dadachova E, Bryan RA, Huang X, Moadel T, Schweitzer AD, Aisen P, Nosanchuk JD, & Casadevall A. (2007) Ionizing radiation changes the electronic properties of melanin and enhances the growth of melanized fungi. PloS one, 2(5). PMID: 17520016
- April 5, 2012
- 11:53 PM
- 340 views
Mycology Symposium, Day 1
by csoeder in Topologic Oceans
When I’m not too busy raging at skuptaloids online, I enjoy molecular biology and mycology, the study of fungi. Towards those ends, I’m visiting the Duke Symposium in Celebration of Mycology and Mycologists. I was only able to attend a few afternoon lectures on the first day of this conference, but am enjoying it greatly! [...]... Read more »
Randolph Nesse, & George Williams. (1994) Why We Get Sick: The New Science of Darwinian Medicine. Vintage Books: New York. info:/
Trick, C., Bill, B., Cochlan, W., Wells, M., Trainer, V., & Pickell, L. (2010) From the Cover: Iron enrichment stimulates toxic diatom production in high-nitrate, low-chlorophyll areas. Proceedings of the National Academy of Sciences, 107(13), 5887-5892. DOI: 10.1073/pnas.0910579107
Turnbull, J., & Field, R. (2007) Emerging glycomics technologies. Nature Chemical Biology, 3(2), 74-77. DOI: 10.1038/nchembio0207-74
- April 4, 2012
- 04:26 PM
- 652 views
Graphing Out Loud: curves and lines
by csoeder in Topologic Oceans
I love graphs – my eyes quickly glaze over at a table of numeric data, but a graph, used correctly, can quickly and easily tell the whole story. ‘Used correctly’ is the key phrase – for all their power, graphs are infamously easy to bungle, and when used incorrectly they can misinform – or lie [...]... Read more »
Andreas D. Hüsler, & Didier Sornette. (2011) Evidence for super-exponentially accelerating atmospheric carbon dioxide growth. arXiv. arXiv: 1101.2832v3
- January 24, 2012
- 02:08 AM
- 509 views
temperature aNOMalies
by csoeder in Topologic Oceans
If you are new to climate science, you might be wondering what, exactly, this ‘temperature anomaly’ thing is that you keep hearing about. I know I was a bit confused at first! This post explains the concept, using a real-world example. Cities tend to be warmer than their surrounding countrysides, a fact known as the [...]... Read more »
Jones, P., Lister, D., & Li, Q. (2008) Urbanization effects in large-scale temperature records, with an emphasis on China. Journal of Geophysical Research, 113(D16). DOI: 10.1029/2008JD009916
- October 5, 2011
- 07:22 PM
- 624 views
cnfusin rained and chas
by csoeder in Topologic Oceans
Last time, we looked at a very simple atmospheric model known as the Lorenz equations, and saw it exhibit the ‘Butterfly Effect,’ in which even very small changes in initial conditions can dramatically effect which path the system takes. However, we also saw that the initial condition had a relatively small impact on the statistical [...]... Read more »
Shukla, J. (1998) Predictability in the Midst of Chaos: A Scientific Basis for Climate Forecasting. Science, 282(5389), 728-731. DOI: 10.1126/science.282.5389.728
Lorenz, Edward N. (1963) Deterministic Nonperiodic Flow. Journal of the Atmospheric Sciences, 20(2). info:/
- August 29, 2011
- 11:17 PM
- 1,004 views
Did chaos theory kill the climatology star?
by csoeder in Topologic Oceans
Last time, we saw that some mathematical systems are so sensitive to initial conditions that even very small uncertainties in their initial state can snowball, causing even very similar states to evolve very differently. The equations describing fluid turbulence are examples of such a system; Lorenz’s discovery of extreme sensitivity to initial conditions ended hopes [...]... Read more »
Easterling, D., & Wehner, M. (2009) Is the climate warming or cooling?. Geophysical Research Letters, 36(8). DOI: 10.1029/2009GL037810
Lorenz, Edward N. (1963) Deterministic Nonperiodic Flow. Journal of the Atmospheric Sciences, 20(2). info:/
- July 1, 2011
- 11:38 PM
- 523 views
Thermodynamics and Poker
by csoeder in Topologic Oceans
There is a comapnion article which discusses this project’s role in decentralized community and citizen science at ArkFab. You can find the current paper here. A while back, I got the idea to investigate how the entropy of a poker tournament evolves with time. In thermodynamics, entropy is a measure of how ‘spread out’ energy [...]... Read more »
Clément Sire. (2007) Universal statistical properties of poker tournaments. J. Stat. Mech. (2007) P08013. arXiv: physics/0703122v3
Annila, Arto. (2009) Economies Evolve by Energy Dispersal. Entropy, 11(4), 606-633. DOI: 10.3390/e11040606
- May 10, 2011
- 12:56 PM
- 505 views
A quick video about the environmental chemistry of carbon dioxide
by csoeder in Topologic Oceans
I find some dry ice and hilarity ensues. Veron JE, Hoegh-Guldberg O, Lenton TM, Lough JM, Obura DO, Pearce-Kelly P, Sheppard CR, Spalding M, Stafford-Smith MG, & Rogers AD (2009). The coral reef crisis: the critical importance of Marine pollution bulletin, 58 (10), 1428-36 PMID: 19782832... Read more »
Veron JE, Hoegh-Guldberg O, Lenton TM, Lough JM, Obura DO, Pearce-Kelly P, Sheppard CR, Spalding M, Stafford-Smith MG, & Rogers AD. (2009) The coral reef crisis: the critical importance of. Marine pollution bulletin, 58(10), 1428-36. PMID: 19782832
- March 28, 2011
- 04:17 PM
- 1,084 views
unknowns, uncertainties, and obsolesence
by csoeder in Topologic Oceans
Antiscience campaigns often share the characteristic that they complain about the open questions, anomalies, and experimental limitations inscience. Scientists, on the other hand, work hard to resolve these issues. Creationists complain about uncertainties on the chemical origins of life; biochemists generate and test hypotheses, developing useful technology and techniques in the process. (Bullard et al. [...]... Read more »
Bullard, T., Freudenthal, J., Avagyan, S., & Kahr, B. (2007) Test of Cairns-Smith’s ‘crystals-as-genes’ hypothesis. Faraday Discussions, 231. DOI: 10.1039/b616612c
Soon, W., Baliunas, S., Idso, S., Kondratyev, K., & Posmentier, E. (2001) Modeling climatic effects of anthropogenic carbon dioxide emissions: unknowns and uncertainties. Climate Research, 259-275. DOI: 10.3354/cr018259
- March 2, 2011
- 11:55 AM
- 973 views
John Everett, Part VIII: The Conch Loosens
by csoeder in Topologic Oceans
The last part of Dr. Everett’s testimony presents his conclusions. Much of it is simply reiteration ofclaims he has already made, but he also takes the opportunity to thicken the smoke screen just a little bit more. Some parts are mundane: ‘The most important approach [...] is to examine what happened during past times.’ I completely [...]... Read more »
Fabry, V., Seibel, B., Feely, R., & Orr, J. (2008) Impacts of ocean acidification on marine fauna and ecosystem processes. ICES Journal of Marine Science, 65(3), 414-432. DOI: 10.1093/icesjms/fsn048
Ken Caldeira. (2007) What Corals are Dying to Tell Us About CO2 and Ocean Acidification. Oceanography, 20(2), 188-195. info:/
- January 4, 2011
- 02:47 PM
- 572 views
John Everett, part 4.4: Has this happened before?
by csoeder in Topologic Oceans
Last time we looked at Dr. Everett’s testimony, we examined his claim that, because carbon dioxide levels have been higher in the past, increasing levels are not alarming now. His argument is flawed, because although CO2 levels have changed, they usually change only very slowly. Now, they’re changing abruptly. Graphs of Deep Time can be [...]... Read more »
Lee R. Kump, Timothy J. Bralower, & Andy Ridgwell. (2009) Ocean acidification in deep time. Oceanography, 22(4), 94-107. info:/
Pelejero C, Calvo E, & Hoegh-Guldberg O. (2010) Paleo-perspectives on ocean acidification. Trends in ecology , 25(6), 332-44. PMID: 20356649
- December 13, 2010
- 06:27 PM
- 600 views
John Everett, part IV.0: Things and Things’ Changing, dva
by csoeder in Topologic Oceans
People who minimize or deny the threat of climate change (or ocean acidification, as in part IV of Dr. Everett’s testimony) will often demand that the change be “unprecedented” – that nothing like it has ever happened before in Earth history. (eg, here) The reasoning seems to be that if there have been ecological events like [...]... Read more »
Ridgwell, A., & Schmidt, D. (2010) Past constraints on the vulnerability of marine calcifiers to massive carbon dioxide release. Nature Geoscience, 3(3), 196-200. DOI: 10.1038/ngeo755
Barrett RD, Paccard A, Healy TM, Bergek S, Schulte PM, Schluter D, & Rogers SM. (2010) Rapid evolution of cold tolerance in stickleback. Proceedings. Biological sciences / The Royal Society. PMID: 20685715
- November 8, 2010
- 05:18 PM
- 596 views
John Everett, part III.0: If some is good, then more must be better.
by csoeder in Topologic Oceans
Have you ever gone camping with someone who doesn’t know how to build a fire? It might go something like this: you get a pile of twigs burning, and immediately your friend starts piling on huge logs. The fire dwindles. “Hey,” your friend says, “This fire sucks. It must need more logs.” If some fuel [...]... Read more »
Coale, K., Johnson, K., Fitzwater, S., Gordon, R., Tanner, S., Chavez, F., Ferioli, L., Sakamoto, C., Rogers, P., Millero, F.... (1996) A massive phytoplankton bloom induced by an ecosystem-scale iron fertilization experiment in the equatorial Pacific Ocean. Nature, 383(6600), 495-501. DOI: 10.1038/383495a0
Iglesias-Rodriguez, M., Halloran, P., Rickaby, R., Hall, I., Colmenero-Hidalgo, E., Gittins, J., Green, D., Tyrrell, T., Gibbs, S., von Dassow, P.... (2008) Phytoplankton Calcification in a High-CO2 World. Science, 320(5874), 336-340. DOI: 10.1126/science.1154122
Anthony, K., Kline, D., Diaz-Pulido, G., Dove, S., & Hoegh-Guldberg, O. (2008) Ocean acidification causes bleaching and productivity loss in coral reef builders. Proceedings of the National Academy of Sciences, 105(45), 17442-17446. DOI: 10.1073/pnas.0804478105
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