On muck, as it applies to the revival of amateur science

I was a tad disin­gen­u­ous in an ear­lier post: in the back of my mind, I have always been plan­ning some­thing spe­cific to do with the reverted wilder­ness acreage we’re buy­ing in the country.

Vic­to­rian ama­teur sci­en­tists have always fas­ci­nated me. I imag­ine fondly that some­day in the next few months you will find me ensconced at a portable table out in “the back”, wear­ing my sun hat and glasses, with my WANned iBook and cheap USB micro­scope, live-​​blogging pic­tures of my very own algae, rotifers, seed cap­sules and such­like. Bet­ter by far, in my technophilic opin­ion, than a moul­der­ing leather-​​bound per­sonal jour­nal filed with water­col­ors of toad­stools and cal­li­graphic noodling.

See, I often pine for the days when not just landed gen­try but reg­u­lar folks had micro­scopes and tele­scopes and fossil-​​collecting hand­books and ter­raria and bred doves and lilies and oth­er­wise learned some­thing first-​​hand about the real world in their own gar­dens and town audi­to­ria. The social norm of pub­lic sci­en­tific inquiry faded long ago, of course, but now I prac­ti­cally despair over it. For exam­ple, home-​​schooling par­ents are prob­a­bly the biggest pur­chasers of micro­scopes and sci­ence train­ing stuff for their kids, but the demo­graph­ics (and gen­eral anti-​​intellectualism) of the major­ity of home-​​school par­ents don’t encour­age me that bio­log­i­cal learn­ing is being thor­oughly elu­ci­dated in these efforts. Most “nature stuff” peo­ple do these days pays atten­tion only to the sort of big dra­matic cheetah-​​kills-​​antelope stuff they’re exposed to on TV: whale-​​watching, hik­ing, hunt­ing, bird­ing and the like. They tramp miles through equally inter­est­ing but ignored life to go and see the ani­mals, and then tramp back home and sit back down in front of the TV, their boots cov­ered in fas­ci­nat­ing stuff on the mat by the door.

Some small part of the rea­son peo­ple don’t “do sci­ence” is the cost of equip­ment and sup­plies. Yes, a nice gas chro­mato­graph is still rather pricey, and a use­ful tele­scope will set you back a few grand. But I spent $30 on my 200x plas­tic USB micro­scope (it’s a dis­con­tin­ued toy), and I have this com­puter just sortof sit­ting around warm­ing my lap up all the time any­way. So I’m not entirely cer­tain that it’s rea­son enough ever. Except maybe nuclear physics, and maybe radio astronomy.

Some other part of the rea­son is sup­posed to be the dif­fi­culty of get­ting your head around today’s super-​​specialized sci­en­tific knowl­edge. Peo­ple (kids) are not trained in sci­ence, there­fore not qual­i­fied to do it. They need some­body to train them in the meth­ods, and show them what they’re sup­posed to be look­ing for, and what it means in con­text. This indi­cates to many peo­ple that sci­ence teach­ers are required, and par­ents there­fore off the hook. But take it from me: I taught botany to wannabe sci­ence teach­ers for three years; you would be fright­ened or very very sad if you really under­stood how bad they were at think­ing or under­stand­ing, let alone teach­ing about science.

But I think the biggest rea­son hob­by­ists don’t do sci­ence is that they just don’t know they can. All you really need to do is think and under­stand the process to be qual­i­fied to do it.

By what will be seen to be a very direct path, buy­ing muck and dream­ing of sit­ting in the shade with a micro­scope and putting it all right here on the Web has reminded me of one of the other projects I’m gear­ing up for.

A huge and very impor­tant chunk of com­plex sys­tems research con­sists, in a reduced sense, of think­ing about how sys­tems are put together of agents fol­low­ing sim­ple rules. Writ­ing lit­tle sto­ries, in other words: “What would hap­pen if peo­ple in a mar­ket sim­ply traded accord­ing to ran­dom rules?” and “What would hap­pen if pro­teins were com­posed of two types of sub­unit (hydrophilic and hydropho­bic) on a chain con­strained to a pla­nar lat­tice, and you let them wig­gle around and ‘fold’? What would you see if you did that? Does it suf­fice to explain some of what really hap­pens in pro­tein fold­ing?” Of course, before they’re pub­lished these what-​​if ques­tions are pret­tied up and pre­sented as if the researcher knew all along that they were doing a ratio­nal exper­i­ment, but because you’re a dili­gent and faith­ful reader to have worked your way along this far already, I’m let­ting you know the Big Secret of Pro­fes­sional Sci­ence: we really mostly just try stuff and see what happens.

The sci­ence part of com­plex sys­tems hap­pens in at least three stages. Two of these are: (1) analy­sis and refram­ing of stuff that really exists in terms that let you talk about it rea­son­ably using con­cepts that eas­ily become sim­ple mod­els, and (3) in inter­pret­ing the com­puter sim­u­la­tions you build accord­ing to those mod­els to see what they tell you about the real world. The bit in the mid­dle, the (2) that dif­fer­en­ti­ates a lot of com­plex sys­tems research, is what I refer to as build­ing anal­o­gous sys­tems — arti­fi­cial worlds in which your model of the real world is lit­er­ally true. So for exam­ple, the pre­vi­ous notion about “peo­ple in a mar­ket trad­ing using ran­dom strate­gies” is in a sense a prospec­tive model of real-​​world mar­ket traders using bounded ratio­nal­ity other weird non-​​rational stuff we see all the time. The anal­o­gous sys­tem you can build is the actual run­ning com­puter pro­gram in which lit­tle agents rep­re­sent­ing peo­ple trade some tokens rep­re­sent­ing real mar­ket goods and cur­rency accord­ing to rules you code as “ran­dom” accord­ing to your inter­pre­ta­tion of the term. The result­ing pro­gram is not the model: your model is your analy­sis of the real world, sum­ma­rized as “per­haps it’s like this” (or hid­den in “what if it were like this?”)

The third part, mainly obser­va­tional but informed by your orig­i­nal mod­el­ing effort, basi­cally lies in col­lect­ing data in the anal­o­gous world and see­ing how that may explain or apply to the real one. For exam­ple, in col­lect­ing a mil­lion dif­fer­ent protein-​​folding results in a sim­u­la­tion based on your two-​​component model of pro­teins, and then see­ing how the sta­tis­ti­cal dis­tri­b­u­tion of the results might match that seen in nature.

I’m wordy because I’m excited and writing-​​to-​​think. All I’m try­ing to say is this, really: Much of com­plex sys­tems research is just:

  1. Look at what’s around you and frame a model that sum­ma­rizes what you think you see
  2. Write and run a lit­tle com­puter pro­gram (an “anal­o­gous sys­tem”) in which the model is lit­er­ally true
  3. See if the behav­ior of the anal­o­gous sys­tem gibes with what you observe.

That’s it.

Point: Com­plex sys­tems research is easy.

See, the inter­est­ing thing about com­plex sys­tems research—simultaneously the thing that makes the sys­tems inter­est­ing, and the field—is that even the anal­o­gous sys­tems we build are capa­ble of unex­pected and often nigh inex­plic­a­ble emer­gent behav­ior. That’s the point: the model is not tractable by tra­di­tional math approaches, so for exam­ple a tra­di­tional econ­o­mist would sim­plify away the stuff that’s emer­gent because the equa­tions are too hard to solve. But you — you cun­ning com­plex­ol­o­gist you — build a sim­u­la­tion based on the model and work around the hard math bit. Yes, maybe even the com­puter imple­men­ta­tion is wild and does weird stuff, but it’s much faster than the real world and so you try it 100,000 times and see what happens.

I har­bor secret desires. Many of those I will choose not reveal here, but among the oth­ers are: I would like peo­ple who are not cre­den­tialed union card-​​holding ivory tower sci­en­tists to be able to under­take sci­en­tific explo­ration and inves­ti­ga­tion per­son­ally, col­lect and man­age the obser­va­tions that will arise, and pub­lish the results in valid peer-​​reviewed sci­en­tific jour­nals (that they can afford).

I think some­thing like the Open Source approach to soft­ware devel­op­ment would work, and for exactly the same rea­sons. I will write about that here in a bit.

In the mean­time: almost any­body who knows what it is (and can write code) has writ­ten a Game of Life pro­gram. Almost every­body who knows what it is (and can write code) has writ­ten a Man­del­brot set gen­er­a­tor pro­gram. The same goes for genetic algo­rithms, Markov text gen­er­a­tors, and innu­mer­able other canon­i­cal “chaos and com­plex­ity” sim­u­la­tions and algo­rithms which have been pop­u­lar­ized through the years. Yet, recre­ational or not, these sim­ple pro­grams are exactly the sort of thing that makes com­plex sys­tems research go.

I’ll bet that at least a dozen of the thou­sands of peo­ple who wrote their own Game of Life (at least those who played with the para­me­ters) encoun­tered phe­nom­ena that would have war­ranted pub­li­ca­tion in a peer-​​reviewed jour­nal. And at the same time, I bet that most of the thou­sands of other peo­ple (if only they had been exposed to the work in the con­text of a com­mu­nity of like-​​minded col­lab­o­ra­tors and back­ground infor­ma­tion) might have moved on beyond screen-​​saver did­dling and addressed real and seri­ous unan­swered sci­en­tific questions.

But as ama­teurs, these folks worked alone and were thus hemmed in by a lim­ited social cap­i­tal and intel­lec­tual con­text. Their results are for­ever rel­e­gated to recre­ational sta­tus in the “umbra” of sci­ence, never pub­lished and thus doomed to obliv­ion. No mat­ter how many inter­est­ing “what would hap­pen if…?” and “what does it mean that…?” ques­tions they asked, the answers were for the most part unat­tain­able or unshared.

That’s sad. It’s just as if they lived in the coun­try, went out occa­sion­ally and poked around a bit, caught a few but­ter­flies nobody had ever seen before, and not know­ing what they had let them go, got bored, and went back in to watch TV.

Work­ing alone, these folks (which I would num­ber in the thou­sands) remain hob­by­ists re-​​creating sim­ple toys. Work­ing together, I think they might become a potent dis­trib­uted sci­en­tific work­force, as pow­er­ful and effec­tive as more tra­di­tional labs and war­ranted scientists.

By my argu­ment, you need three tools to do valid com­plex sys­tems work your­self: One is what you are sit­ting in front of right now. Another is the mess of meat perched up there at the top of your neck. And the third? Access to other peo­ple work­ing on the same thing.

And that’s one thing you can do with muck and the Web that you can’t do with just muck: begin to disintermediate—or enhance and expand—the tra­di­tional sci­en­tific establishment.

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