Monday, April 28, 2014

A model for the emergence of leaders and followers in foraging pairs

Animals have a lot to gain by foraging together. One of the biggest costs while feeding is having your attention focused on the food obscured by the rocks at the bottom of a river, or the prey trying to squirm away from you in the tall grass - and not on a predator that could be watching from just out of sight. Similarly, the world is a big place, and especially with mobile prey or ephemeral food patches, you might have to invest a lot of time to actually find food. Having other pairs of eyes scanning your surroundings while you eat or helping you find food is a huge benefit. Yet, how do socially-foraging animals actually decide when to eat as a group? Is it necessary for them to communicate their hunger state to each other? In a 2003 paper by Rands and colleagues, a very simple model for social foraging in a pair of animals showed that the mere existence of benefits to foraging together is sufficient to evolve synchronous foraging and 'leader' and 'follower' roles, even without knowledge on the state of your partner.

Article details
- Rands SA, Cowlishaw G, Pettifor RA, Rowcliffe JM, Johnstone RA. 2003. Spontaneous emergence of leaders and followers in foraging pairs. Nature. 423: 432-434.
- Corresponding author (Dr. Sean Rands) is currently affiliated with the School of Veterinary Sciences, University of Bristol, UK

Very brief summary
Rands et al. build a dynamic model where two animals make decisions on when to rest or forage. Each animal makes its own decision, and the decisions can be coordinated, sometimes coordinated, completely independent, etc. Resting increases the risk of starvation but decreases the risk of predation, while foraging decreases the risk of starvation but increases the risk of predation. If there is any benefit to foraging together, a pair of animals will forage together (not too surprising). What's more interesting is that one animal will begin to always be relatively well-fed and the other animal will always be hungrier. This hungrier animal becomes the "pace-maker" that decides when the two animals forage, as it is always closer to starvation. Because it's too costly to not forage together, the better-fed individual will follow, maintaining its high energy reserves.

Glossary
- model - a description of a system using relationships between variables. (This is an incredibly broad definition, but models can cover essentially anything.)
   o Example: A system can be the nutrient composition of a forest's soil, with the variables being the amount of rainfall and erosion, the frequency of fires, the age of the forest, etc.

- dynamic model - a model where the outputs change over time. 
   o Example: the number of elk in a forest, depending on the forest's carrying capacity and hunting efforts by local hunters. As the number of elk in the forest changes, the predicted number of elk for the next year will be different. 

- forage - to seek and eat food. 

- robust - strong. The outcome of a model is robust when it's not dependent on very specific contexts or starting conditions. It's the difference between a model that predicts drunk patrons' dating successes at a bar on Thursdays, when only beer is being served, each beer is 5% alcohol, there are between 94 and 102 people in the bar, and hip hop music is being played... versus a model that can accommodate wider ranges in the inputs.

- state-dependence - the outcome depends on what state you're in (which can change). This 'state' could be hunger level, reproductive status, emotional state, etc.

Article summary-----------------------------------------------------------------------------------
Biological context
The risk of starving versus the risk of getting eaten yourself is the largest trade-off in an animal's decision on whether or not to forage. Foraging minimizes the risk of starvation, but it increases the chance of getting caught by a predator as you're wandering around and then focusing on eating your food while out in the open. Resting minimizes the chance of a predator finding you, but depletes your energy reserves. What is the best strategy for survival?

Building the model
Previously, dynamic programming had been used to successfully examine the trade-off between starvation and predation on short-term, minute-to-minute decisions by individual foragers. Rands and colleagues decided to extend the logic to pairs of individuals by creating a dynamic games model, which uses similar rules but allows for modeling the behavior of groups. 

In their model, either one or two animals make the decision to either forage or rest. 
  - Foraging: decreases risk of starving, increases risk of getting caught by a predator
  - Resting: decreases risk of predation, increases risk of starvation

Note that it's possible to forage and not find any food, and for a predator to catch you while resting. An animal takes into account its energetic reserves vs. the risk of predation and then makes a decision to forage or rest. Its energetic reserves change. Then, it evaluates its new reserves and makes a decision again. And so on (assuming it isn't caught by a predator). The model finds what choices an animal should make over repeated turns to maximize its lifespan.

In the first part, an animal makes its decisions based solely on its own reserves; it's essentially the only member of its species in existence. In the second part of the model, there are two animals making decisions, and the decisions of one can influence the other (or, if the animals live longer if they ignore each other, the other animal's decisions will have no influence). Because the calculations are computationally expensive, the authors decided to only model pairs of foragers, though they argue their model could be extended to groups.

Foraging alone
By yourself, the answer is straightforward: spend the minimum amount of time looking for and eating food to pass some threshold for energy reserves, then spend all other time resting. This makes sense if you think of the extremes: there's no point in waiting until you're nearly starved before hurrying out to find food because you might not find the food immediately. On the other hand, there's no need to forage constantly to attain 99% fuel reserves when 50 or 60% is just fine (and when going home early decreases the chance of a predator finding you and turning all that investment in the future into a waste of time). Not foraging constantly makes even more sense if you consider that fat stores are heavy and can, for example, impede a bird's ability to fly. (Side note: I love the title for the linked paper - "Impaired predator evasion in fat blackcaps (Sylvia atricapilla))

The answer gets a little more complicated if you're with someone else who's trying to decide when to forage. You have a few possible options:
  1. Forget the other guy. I'm going to find some farmer's garden to sack by myself. (Activities uncorrelated; D' = 0)
  2. I dislike that other guy so much, I'm going to stay in the burrow while he's out, and leave as soon as he comes back. (Activities completely anticorrelated; D' = -1)
  3. He's not so bad once you get to know him. Let's rest and feed together at the same time. (Activities completely correlated; D' = 1)

Here, D' is the relative disequilibrium parameter. Note that D' can also be some value between -1 and 1, representing partial (anti)correlation. If there is no benefit to foraging together, and assuming there's plenty of food to go around, option 1 happens: you and your partner are uncorrelated. Both of your energetic reserves settle at the same level, which is just around some threshold for when you should stop resting and go out to forage. 

Foraging together
If there is some benefit to foraging together, Rands et al.' model shows that the two animals' resting and foraging decisions will become tightly synchronized. This benefit can be either a decrease in the risk of predation (e.g. someone can keep watch while the other eats) or an increase in the chance/speed of finding food; either option leads to this synchrony in activity. It's just not worth the cost to forage by yourself. 

Interestingly, a gap forms in the energy reserves between you and your partner. The model shows that over time, one animal will begin to stay at low reserves and the other will stay at high reserves. The animal that is closer to starvation will become the 'pace-maker,' deciding when the two should forage.

This outcome is robust, as the authors thoroughly varied the parameters in the model (e.g. mean energetic gain from a foraging bout, energetic loss over time, predation risk while resting vs. foraging), and the same result emerged every time. This is important because ultimately, a model needs to tell us something about the natural world. Social foraging is incredibly widespread across taxa, meaning this is a behavior that has evolved numerous times under extremely different contexts. (e.g. a lion and a starling have drastically different ecological pressures, but both forage in groups.) Certain parameter values will be more relevant to some species than others. If the outcome of the model still holds through a wide range of parameter values, it's a good sign that the model can tell us something relevant to many animal groups in nature. 

Conclusions
If it's beneficial for two animals to forage together, synchronized foraging will emerge, as well as 'leader' and 'follower' roles. The simplicity of the model and its robustness indicate the model's results are applicable to a wide range of taxa and can easily evolve. No advanced problem-solving skills, expert knowledge of the environment, or even any sort of communication are required for this outcome to occur. It is only required that an animal knows how hungry it is, the fact that is safer (or more profitable) to forage with a conspecific, and to be able to quickly incorporate its partner's decision to rest or forage into its own decision on what to do.

Full text of the article can be found here.

Image credits:
- Solitary raccoon: National Geographic
- Racoon pair: Animals Time

Saturday, March 8, 2014

Protest the Hero - "Dunsel"

"Dunsel," by progressive metal forerunners Protest the Hero, explores the darker side of being signed to a record label in the music industry. After three albums with the labels Vagrant and Underground Operations, the band decided to forgo all label support and instead reach to their fans to crowd-fund their newest album. 

In a revealing video in their indiegogo fundraiser, PTH explained the financial spiral so many bands get stuck in to meet their requirements to their label, frequently leading to bands abandoning their initial style in favor of what the label wants. PTH decided they'd had enough and would try a different route to making an album... and the fans overwhelmingly supported them. Protest asked their fans for $125,000. The fans gave them $341,146. Songs like "Dunsel" might help explain this growing trend of bands going independent from record labels.

Artist: Protest the Hero
Song: "Dunsel"
Vocals: clean, shouted

The song:














My drum cover:


(Time stamps are from the first video.)

Doubt, stirrings. A lighthouse far away, the light shining through fog floating above murky water. A hand reaching for the surface before disappearing... but then a gasp of air as you break the surface.  

And when the underworld's best-kept secret
Saw its own reflection
I knew things had finally changed
For better or worse
Whatever as always

The drums initially set a forward-pushing beat, a steady forward stroke in choppy waters threatening to pull you back in. You awoke in time to save yourself from drowning, but now you have to make it to land. People need to hear about what you've seen; it's unjust, it's unfair but no one knows. The drums capture this struggle; 0:25-0:26 (5:22 drums-only) has you pushing back, fighting fighting fighting symbolized by the strikes against the cymbals, but then you miss the snare, instead hitting hard on the kick drum. It's like missing a step while walking and stumbling to your knees. Your determined stroke has faltered, and now you're just struggling to keep your head above water. Getting your message out will be harder than you thought it would be.

0:37 - 1:08 (5:38 in drums-only version)
With the hands that sold me everything
Slapped a price tag on my chest
Bit my tongue and shut my mouth
Tried to blend in with the rest
But I'm a square peg, I'm a sore thumb
And it seems to me self apathy
Kills the life in artistry
(And leaves us) ankle deep in industry

The steady rhythm from before is replaced with waves of pushing forward and regressing. Double bass pushes forward (0:38), single bass falling behind (0:39), forward again, left and right, we need to keep moving forward (0:44). 0:53-1:01 feels like moving in circles. The hits on the ride bell + snare give the feeling of a factory, a strike of a hammer on metal, with you just another product on a conveyer belt.

1:09 - 1:27
Ominous. The drums are surprisingly tricky. I love the weight of the guitars and bass here.

The beginnings of success, a career taking off. It starts getting difficult to keep track of where you are as your career is taking off, spiraling, changing direction until it's a blur and you can't quite remember how you got here.

All these songs sound so damn good
Even if their meaning's hollow
Hollow words dry out your mouth
You might find it hard to swallow
All this s*** that we keep feeding
To keep ourselves and you believing
That no money could change us
Then a door opens up and some devil persuades us 

I absolutely love this section. The song here creates such an ominous, dark, and dreary atmosphere, more emotionally jarring than the use of  screamed or growled vocals, fast drumming, or heavily distorted guitars. I envision a moment of self-realization in a room backstage after a big show. You lie reclined in a comfortable crimson chair with a cigarette hanging out of your mouth and half-drunk bottle of whiskey in your limp hand. You're in a dimly lit room full of laughing businessmen, beautiful women wearing revealing clothing, bottles of expensive liquor strewn about, the smoke of cigars floating above your bandmates doing things they'd promised twice in previous weeks they would stop doing.  The bass guitar is a nagging thought at your temple refusing to disappear back into your mired consciousness, the guitars the blurry swaying lights above you struggling to come into focus as you think to yourself, "What am I doing here...."

The songs we sung
When we were just young
Have all but lost their meaning
But there's still a few things we keep on believing 

2:28 - 2:39
Reprise to the beginning, thoughts full of doubt, flashbacks to being an opening band for your idols, wondering what was happening behind the closed doors of their tour bus and wishing you could be a part of it.

2:40 - 3:17 (7:40 in drums-only version)
The tour continues with sold-out shows but somehow your bank account is still pitifully meager. What part of the contract said you would be eternally in debt to the label? The sooner you end this, the better.

S****y music just ain't worth making
Smiles and thank-yous just ain't worth faking
Some a**holes' hands just ain't worth shaking
And if it ain't broken, we need to break it

Back to the factory. This time the failings of the system are more visible than ever.

3:18 - 3:53 (8:18 in drums-only version)
These days I don't know
The people I'm supposed to trust
And I don't trust these people
That I'm supposed to know

The handlebars on my dreams slowly start to rust
They'll take everything and somehow you still owe
As the cocaine cowboys finally get their wings
And sell them all for blow 

The guitar in the second verse... wow. After letting down your guard in the first verse, you shift to a sharp tongue in the last two lines, a premonition of the barrage in the next section.

3:54 - 4:19 (8:53 in drums-only version)
The drums in this intense section are super fun. I really like the alternating fast double bass and the choked hits on the hi-hats and cymbals (e.g. here in the drums-only version). Rody Walker, the vocalist, does such awesome angry/frustrated shouts. The double bass during the last lines (below) really accents the message.

I make music for myself
Not for hat tips from the upper tier and their undeserved wealth
Here's to their failing f***ing health

4:20 - 4:53  
Some fancy guitarwork by guitarists Luke Hosin and Tim Millar, and more double bass drums and shouting at the system. Suddenly, it's over.  

Protest the Hero followed up to "Dunsel" with a song on their next album criticizing musicians who don't appreciate their fans. The music video, involving hand puppets and pyrotechnics, is actually really well-done. 

Image credits:
- Earth in a bottle: Erik Johansson
- Ewan McGregor: Trainspotting
- Rody Walker: last.fm

Monday, March 3, 2014

Reality mining: tracking individuals in groups

The study of animal social behavior is undergoing a phase shift. Ever-improving tracking technology now allows unprecedented resolution of the mechanisms undergoing social interactions in large groups in the wild. Researchers can now begin asking questions requiring knowledge on individual identities, fine-scale association patterns, and more. The review article in this blog post, Krause et al. 2013, investigates and explains these exciting new technologies. 

Article details
- Krause J, Krause S, Arlinghaus R, Psorakis I, Roberts S, Rutz C. 2013. Reality mining of animal social systems. Trends in Ecology & Evolution. 28: 541-551.
- Corresponding authors (Krause J and Rutz C) are affiliated with:
   o The Department of Biology and Ecology of Fishes in the Leibniz Institute of Freshwater Ecology and Inland Fisheries and the Department of Crop and Animal Sciences in Humboldt University, Germany
   o The School of  Biology at the University of St. Andrews, UK

Very brief summary
Automated technology can now provide data at time intervals small enough to get at the mechanism of social processes in terrestrial and marine animal groups. The acquiring and analyzing of these tremendous amounts of data has been dubbed 'reality mining.' Reality mining can give descriptive and predictive models on disease transmission, predator-prey interactions, information flow within and between populations, formation of social hierarchies, cooperation between individuals, and responses to ecological events. A major trade-off in these technologies is battery life and weight versus how detailed the data are. Two major applications of reality-mined data are social network analyses and Hidden Markov Models.

Glossary
- association pattern - information on which individuals were physically close to one another over time. Loggers can measure direct patterns, where proximity between two individuals causes their loggers to record each other's identities, versus indirect patterns, such as when an individual was near a receiver (e.g. by a bird feeder), or a comparison afterwards of the GPS spatial positions of two individuals indicates they were near each other at some point

- biologger - a miniature animal-attached tag that stores information. It is not uploaded continuously; rather, it has to be within range of a receiver for the data to be downloaded (see biotelemetry: passive)

- biotelemetry - a general term for technology where a signal is sent from a transmitter (e.g. on the animal) to a receiver elsewhere. Active biotelemetry is where the data are uploaded continuously, while in passive biotelemetry, the data are uploaded when the transmitter and receiver are within range

- GPS - global positioning system. The system uses satellites to provide time and location information

- Hidden Markov Model - a model of probabilities based on random processes that can't be directly observed, only the outcomes of those processes. e.g. a model depicting the probability that we observe a fish school migrating at this particular moment, based on movement data that says "when the fish move like this, they are preparing to migrate; when they move like that, they are just hungry; when they move this other way, they are courting, etc." We can't actually know what's going on in the heads of the fish, but based on their movement patterns (which we can observe), we can estimate their motivations

- PIT/RFID - passive integrated transponder tag / radio-frequency identification. A small microchip placed on the animal allows for touch-free future identification; when exposed to radio field around a receiver, the tag transmits its identification code to be recorded by the receiver. e.g. a bird feeder equipped with an RFID reader can record the identity and time a PIT-tagged bird uses the feeder

- reality mining - the collection and analysis of machine-acquired data on social behavior of animals or humans

Article summary-----------------------------------------------------------------------------------
From humans to animal groups
The advent of the internet completely redefined the possibilities of researching human behavior. Humans browsing the internet leave digital 'footprints' of the websites they visit, from passive information like visitation rates and visit duration, to more active data like comments and clicks. Consider the fact that as of February 2014, more than 95% of the Western world uses cell phones, Facebook has 1.3 billion monthly active users, and more than 500 million messages are posted on twitter daily. This allows for analyses of nearly entire human populations with incredible spatiotemporal accuracy (though it definitely makes you think twice about your internet habits...!).

The interdisciplinary field of data mining is dedicated to finding patterns in enormous pools of data like human internet usage. Population-level patterns such as the topology and dynamics of social networks (i.e. who you're connected to and how that changes over time), the flow of information within and across populations (e.g. how a town learns about the murder of a politician vs. how the rest of the U.S. finds out), and daily activity (e.g. when, exactly, are 13-17-year old males visiting Facebook, to be most efficient with advertising that action movie?) of an entire population can emerge from analyzing aggregates of individuals' data.  

Where we're coming from
For decades, behavioral ecologists have been limited to observing animals indirectly or by eye or surreptitiously-placed video cameras. This makes systematic and disturbance-free observations of animals in the wild incredibly difficult, especially animals that steer clear of humans, are rare, or live in inaccessible habitats (such as underwater!). Now, though, tracking technology has advanced to allow us to begin collecting tremendous amounts of data on the movements, behavior, physiology, and/or environments of animals, even the animals we had trouble tracking before. This tidal wave of data is expected to have an impact similar to what the internet had on understanding human behavior.

Previously, researchers relied on standardized resighting methods to obtain data on a small number of individuals in a population. Say you wanted to catalogue the social interactions of a 40-member baboon troop. If you want to have accurate results for an individual, you'll want data on many of that individual's social interactions. Simultaneously, though, you'll want data from as many individuals as possible... what's the point of knowing a lot about only one individual, 2.5% of the group?


You and two undergraduate assistants set out to record this troop with video cameras, focusing on six of the forty individuals (those six are the easiest to tell apart from a distance). You get 25 hours of video, over four days. You'd like more time but the troop crossed a river into a game reserve that doesn't allow researchers in. Now comes the hard part. Extracting the social interactions from those videos will take FOREVER (only a minor exaggeration). The more detail you want from the videos, the more times you will have to rewatch the videos. With whom did Individual 1 interact? Where were they? How long was the interaction? Was it aggressive, neutral, conciliatory? Was there more than one stage to the interaction? You return from Africa and spend the next few months coding the videos. (Let's read that again: you will go through the start of the academic year, Halloween, Thanksgiving, the winter holidays, the New Year, and probably Valentine's Day watching and rewatching the same videos from your summer in Africa.)

The more time you spend coding, the more detailed your data will be... but ultimately, the data only cover 15% of the members of the troop, over a very short time scale. Your data hint at an interesting association between subordinate adult males and subordinate juvenile males...  but despite all your work, there just aren't enough data to know for sure. You realize that for the next field season, the scope of your questions must be much more focused and your data collection more rigorous than you could have anticipated.

Current tracking technology
Current reality-mining technology now makes the research in the previous paragraphs immensely easier. It's now possible to get social associations and spatial data down to the second for every member of a group (assuming you have the money, of course). The output of these technologies isn't a video that needs to be analyzed by hand; the output is the data you would have had to have extracted from the video, and it's likely to be more accurate than if the data were collected by a human. 

While the major tracking technologies differ in what, exactly, they record and how the data are uploaded, they all involve some sort of miniature logger placed on the animal. The logger can be a collar or a chip planted underneath the skin or attached to the foot. The black-capped chickadee on the right is carrying such a logger (a PIT tag in this case) on its foot. (The lime green rings are for visual identification.)

The loggers fall into two general categories: biologgers and biotelemeters. Biologgers store the data on internal memory, which is later uploaded. Think of the logger as an SD card for your camera. Biotelemeters, on the other hand, are like a radio shooting off information to be recorded elsewhere. Biotelemeters can be active, where they're transmitting information constantly (and usually require a battery source), or passive, where they transmit information when they're close to the receiver (and get a jolt of life from the receiver). 

So what can you actually gain from biologgers and biotelemetry? For one, quantifying social interactions becomes much easier. Association patterns are essentially lists of when an individual was close to another particular individual. Instead of watching a video (or more challenging: through binoculars live) to record this, the tracker on the animal does it for you. It then forms either a direct or indirect association pattern. Direct encounter patterns are a list of animal-animal interactions; any time two loggers are close, both record who the other individual was and when they met (and in a few exceptional cases, also where). This requires that the loggers act as both transmitters and receivers, which can require more expensive technology and battery life.

Indirect encounter patterns are more common and less costly. These data can be the GPS spatial coordinates of an individual over time (which you can then compare with the coordinates of other animals to see when they were close to each other), or they can be fixed receivers that record an animal's visit to a location. This location can be a feeder for mammals or birds, or it can be a section of a river, as in the picture on the right. The monitors record the identities of tagged fish that swim through this section of the stream. While these data aren't nearly as detailed as direct encounter patterns, the advantage is that the loggers can be much smaller and have markedly longer battery life.

Current limitations
The data produced from biologging and biotelemetry have enormous potential, but a few limitations remain. Chief among these is the lack of context for the social interactions. What was actually happening in those 4.773 seconds when Individual A44J482DKK was near A44A990RWE? Future work aims to include sensors on the loggers that could measure heart rate or hormone levels, or miniature video cameras or accelerometers for a window into the animal's surroundings and behavioral state.

One last limitation may remain no matter how far we push the technology: we will always have to deal with missing data. In the wild, it is exceedingly difficult for every individual in a social network to be tagged; aside from the challenges of capturing every member of a group, many groups change membership over time. In species with fission-fusion groups (members entering and leaving, groups joining and breaking apart), the actual number of individuals needing to be tagged becomes much larger than the 20-bird flock or 100-fish school you originally had in mind. (Otherwise, your data will look like your animals are interacting with ghosts!)

Applications of reality mining data
Reality-mined data serve to vastly improve studies on social networks and Hidden Markov Models. A great example of reality-mined data in social networks was performed by Dr. Lucy Aplin and colleagues at Oxford University. In the study, sympatric great tits, blue tits, and marsh tits in the Edward Grey Institute woods were PIT-tagged and feeders were placed at random locations in the woods. These feeders recorded the identities of visiting birds, allowing for an analysis of whether social learning (i.e. where the feeder is) has any relation to social connectivity. In other words, do birds differ in their access to and use of information on what others are doing? The answer was yes: the three species of tits all varied in their social connectivity, and more connected individuals found food more quickly than less-connected birds. Because the feeders recorded the identities and times that birds visited, constructing associations between individuals was possible. The social network from the study is shown above.

Hidden Markov Models (HMM) can also benefit from reality-mined data. An HMM is a probabilistic model on a stochastic process that we can't directly observe, only its outcomes. An example would be using data on where a human is and at what time to try to figure out if he is awake or sleeping. If a person is at the mall at 3:00am, for example, he's probably awake. If he's at his office at 10:30am, he's also (probably) awake. However, if he is in his room at 3:00am, he's probably asleep. We can never say for sure whether an individual is awake or asleep, but with sufficient data, we can give accurate estimates for whether they will be awake or asleep at a given time and place.

Conclusions
The sheer amount of data reality mining offers is exciting. It is becoming increasingly feasible to investigate how population-level structure emerges from highly dynamic, individual-level associations. This tidal wave of data is likely to change our understanding of the mechanisms of evolutionary adaptations of animal groups and social behavior in the wild.

The full text of the article is available here.

Photo credits: 
- Baboon troop - Ari Strandburg-Peshkin

Saturday, February 1, 2014

The Algorithm - "Trojans"

It's hard to categorize The Algorithm as electronic, dance, industrial, or metal because the band effortlessly merges and transitions between these genres throughout their songs. "Trojans," the single off their album Polymorphic Code, is worth checking out for its crazy electronic barrage of rhythmic complexity. The incredible drum and guitar playthroughs by the band's drummer and touring guitarist, respectively, are worth checking out, too.

[2-10-14 Edit: Rémi Gallego, the production/mixing musician in The Algorithm, was kind enough to share his thoughts on writing and performing "Trojans"! His commentary is at the bottom of the article.]

Artist: The Algorithm
Song: "Trojans"
Vocals: none


(Time stamps are from the music video.)

0:06 - 0:49
Endless repetition, the copying of DNA from generation to generation. A mutation at 0:13 fails to propagate. Awakenings with the drums. I love the beginning of the beat at 0:35 with the hits on the bell of the ride cymbal, shifting the feel from a foggy stirring into a march forward.

0:50 - 1:03

Writing about music this complex is pretty hard. I envision walking through a forest flickering between 16-bit and convincingly realistic, the bass guitar a dark rumbling through the leafy woods. The alternation between pauses and fast, high-intensity kick drum rolls at 0:58 ooze ominous. Your vision flickers at 1:01, multicolored fractals flying away from you before you quickly scale a hill to overlook the clearing below. (I know the picture on the right isn't a forest but bear with me.)

1:04 - 1:36
This is one of my favorite progressive metal riffs. From your perch, you overlook cascading memories, waterfalls of code. The guitars are flickering electric reds and blues appearing and disappearing as they unfold in the deluge. The drums alternate between double bass pushing forward and single bass catching you as you've been reciprocally pushed back, like hopping on one foot. The snare at 1:13 is you snapping back, the conflict finishing with a flourish at 1:17 before the whole process restarts. The rolling drum fill at 1:20 (HT-HT-HT-HT, kick-kick, MT-MT-MT-MT, kick-kick, LT-LT-LT-LT) parallels the memories, code, and electricity disappearing from view.

1:37 - 2:09
A ring announces the arrival of a new paradigm. Your vision fades as you enter a casual progression, calm travel through deepening layers of the subconscious before you're jolted awake at 1:47, pulled from the depths like a fish caught on a hook. Attached to a machine, the middle of a surgery, uncertainty and confusion before you blissfully fall back asleep and can traverse your unconscious uninterrupted. The rings (e.g. at 2:00) are like the peaks of mountains coming up out of clouds as you're flying overhead but then disappearing back underneath the white.

2:10 - 2:26
Connection established. Not sure what to write about this besides the fact that I wouldn't mind dancing to this in a club in Berlin.

2:27 - 2:55
In progressive metal, some level of unpredictability keeps things fresh. Bands like Between the Buried and Me take it to a new level, most memorably with the notorious hoedown in their song "Ants of the Sky." In "Trojans," it's interesting that the kick drums are so simple from 2:30-2:36, especially when compared to how difficult they are in the rest of the song. The first few times I listened to the song, I kept expecting to be tripped up with sudden double bass. 
 
2:56 - 3:23
Insanity. The music video has some awesome visuals at this part. The snare drum doesn't always hit on the downbeat, instead sometimes appearing just before or after.

3:24 -4:06
The synth here repeats in an unpredictable pattern, the computerized hi-hat/snare stumbling in like a frenzied tapdancer. The drums arrive at 3:40 to give structure. In the music video, I love how drummer Mike Malayan smiles at 3:57; he always looks like he's having such a blast whenever he plays the drums.

4:07 - 4:26
Not quite awake, consciousness flickering like a fluorescent light in a graffitied metro.  Four quick hits on the splash cymbals preface the return of the drums (which I really love at this part). A series of quick steps follows the pause at 4:20 before utter nonsense - in a good way - at 4:24. I imagine it like rolling a ball up a hill, making it nearly to the top before the ball splinters into pieces, chunks falling back down the hill as you try to hold onto as much of the ball as you can. 

4:27 - 4:40
After the crazy free-form drumming of the previous section,  the drums restore structure with steady hits on loose hi-hats. The splash cymbals spice it up at 4:30-4:32 as again, the ball rolling up the hill begins to unravel. Suddenly: it's over. 

If you liked this and want something more metal, check out "Access Granted" by The Algorithm. Something more electronic/dancey would be "Logic Bomb."

Photo/gif credits:
- Real/computer world - The Thirteenth Floor
- Fractal gears - reddit: steakmane
- Blue ring - tumblr: Galimateque 
- The Algorithm - Basick records: "Trojans" music video
- Spike curve - reddit: author unknown

UPDATE 2-10-14:
Producer/mixer Rémi Gallego comments: "Hey Matt, thanks a lot! That's a really good article, I really enjoyed it. :-)

I wrote trojans on a really bad speaker system in a tiny room when I lived in Toulouse, France. I was a bit pressured by the label as they needed a track to release for when i signed with them. This pressure allowed me to focus on the writing in a really intense way, I remember locking myself up for days in my bedroom and editing the track over and over again. The final version of the track being extremely different from the first draft. It's a track that shows well the obsessiveness of writing that kind of complicated music, and I like it for this very reason.

My favorite is the part that start at 2:56. Simply because it's really intense and it's really fun to jump around on stage, I like the contrast with the previous section."

 

Saturday, November 23, 2013

Writing the self-contained universe

You are not sitting next to me right now as I type these ideas. You're most likely not in New Jersey, and you might not even be in the U.S. The fact that it's even possible for you to be reading these words right now highlights an ever-growing need to be able to communicate ideas through writing. It's the difference between you growing bored and leaving halfway to explore other parts of the internet, and you finishing this blog post (before moving on to explore the rest of the internet!).

In essence, writing is just a means of getting info from Point A to Point B. No matter how many amazing and intelligent ideas you may have in your head, they will have to stay there if you don't know how to communicate them. Here are a few tips on bridging the gap between you and your reader's mind when it comes to e-mailing a professor or potential collaborator, writing a grant, or explaining your ideas in general. 


1. Who is your reader? Why should they care about your message?
Example: e-mail
As often as possible, put yourself in the head of the person reading what you wrote. Let's say you're e-mailing a professor to potentially do a PhD with them. They'll want to know:

- Who is this person? Is he/she currently an undergraduate? If not, what has she done since then?
- What are his research interests? Of my work, what interests him?
- What are her research qualifications? Has she done research before, or is she just applying to grad school because she hasn't considered other options?
- Has this applicant actually read up about my lab and thinks he's a good fit, or is he just sending a template e-mail to every researcher he can find?

The more of these you can answer, the more willing the professor will be to respond. Remember that professors are incredibly busy people. Chances are, they enjoy talking with new people and exchanging ideas. But, their schedules are so packed that the easier you can make an e-mail exchange for them, the less time they have to spend answering these questions themselves. You want a researcher to be nodding her head as she reads the e-mail, her questions being answered as she reads so that by the end, the work has been done for her and she can now focus on writing her response.

2. Does your writing actually address what you wanted to say / the prompt?
Example: grant writing, lab reports
Say you're working on an NSF-GRFP grant (the National Science Foundation Graduate Research Fellowship). You have phenomenal research ideas that would explain a genetic basis for sociability in humans, and you have told a heartwarming story on how you discovered and decided to pursue science. A few months later, you're surprised to find your revolutionary ideas were not funded by NSF. What happened?

It's likely that you didn't answer every part of the application to the degree NSF was looking for. Consider an introductory biology lab in which the students dissect fish and chicken hearts (diagrams on the right). In their report, they are asked to compare the two hearts and explain how these hearts differ in the ability to support different levels of metabolic demand. Unless they provide comparisons between the two hearts and explain how those differences affect ability to support varying metabolisms, they will not get full credit (no matter how detailed either component of their answers are). Think of it as:

1o points total:
5 - provide 3 differences between the 2 hearts
5 - explain each difference in terms of metabolic potential

You can slam dunk those first 5 points, but if you don't address the second section, it's likely you won't even get a passing grade. Similarly, for the GRFP, regardless of how incredible your ideas are, if you don't explain how your work has any relevance outside of bullet points in a textbook only people in your field will read, even the very best ideas will get passed down. Again, think from the GRFP officer's viewpoint: every applicant has good ideas, but NSF wants research fellows who will not only advance science but also help spread its ideas beyond the scientific sphere. Even if you would do outreach if you had the opportunity, if you don't write about it, the GRFP officer can't assume you would.

3. If your writing was an isolated universe, would that universe make sense?
Example: course exam
This is one I repeatedly tell my introductory biology students for their lab reports and exams. Imagine your mom somehow stumbled across your biology midterm essays (of all the things she could have discovered in your room) and was reading them. Would she be able to understand what you wrote? In this situation, you have someone who most likely hasn't taken college-level biology in a few decades, if ever. Do they get lost in your jargon, or is your answer self-contained enough for anyone to be able to pick it up and learn something from it? One of the biggest road blocks to a good scientific talk is losing your audience part way because you assume they understand something they actually don't. Being able to grab a listener from any background and pull them to a new level of understanding is challenging, but it's critical for teaching.

4. How long do you think your reader will spend on your writing? If they skimmed it, would they still get your message?
Example: lab report, scientific articles
Many science majors in college are under the misconception that a longer lab report is a better one. The idea, which seems reasonable at first, is that the more information you put down, the larger the net you are casting, which has a better chance of catching the answer your TA is looking for. Unfortunately, it's not quite like that. Aside from giving yourself more opportunities to write something incorrect and actually lose points, in the scientific world you will almost never be in the situation where you've written everything you need and should keep writing more.

Again, think about writing as a communication of ideas. Short and sweet (i.e. efficient) is always preferable to long and winding in science. Scientific articles have abstracts so readers can get the gist of the article without needing the motivation, background, and time to read the entire thing (remember how busy many researchers are!). Articles in the journal Science actually have one-sentence summaries for the particularly busy and researchers in related fields who may want a simplified version of the abstract. Brevity is a much better skill to have than the ability to list everything you know about a topic.

Consider the reader, consider your miniature universe. And if all else fails, just call your reader on Skype.

Photo credits:
- Thinking: Basic College English blog (http://uppampangaenglish.blogspot.com)
- Chicken heart: University of Illinois at Urbana-Champaign Chickscope (http://chickscope.beckman.uiuc.edu/explore/embryology/day02/comparative.html)
- Fish heart: Stanford University Environmental Science Investigation (http://esi.stanford.edu/circulation/circulation5.htm)