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robfatland committed Aug 12, 2024
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4 changes: 2 additions & 2 deletions book/chapters/data.ipynb
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"cell_type": "markdown",
"metadata": {},
"source": [
"[Jupyter Book](https://geo-smart.github.io/oceanography/intro.html) and [GitHub repo](https://github.com/geo-smart/oceanography).\n",
"[Jupyter Book](https://geo-smart.github.io/oceanography/chapters/data.html) and [GitHub repo](https://github.com/geo-smart/oceanography).\n",
"\n",
"\n",
"# Data\n",
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"version": "3.12.3"
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70 changes: 32 additions & 38 deletions book/chapters/ocean_science.ipynb → book/chapters/oceanscience.ipynb
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"## Science basis\n",
"\n",
"\n",
"The purpose of this Jupyter Book is to present research ideas in oceanography relative \n",
"to observational data from sensors. The underlying program is to provide a reproducible \n",
"methodology. As *method* can take up all the oxygen in the room: Before diving in\n",
"let us frame the science, beginning with an ambitious question:\n",
"<br><br><br>"
"The purpose of this Jupyter Book is to explore research ideas in oceanography relative \n",
"to observational data from sensors. The underlying agenda is to document a reproducible \n",
"methodology for this exploration. However *method* can take up all the oxygen in the \n",
"room so before diving into the data let us take a moment to frame the science, beginning \n",
"with an ambitious question:\n",
"<br>"
]
},
{
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"source": [
"${\\Large \\textrm{How stable is the epipelagic ocean?}}$\n",
"\n",
"<br>\n",
"\n",
"\n",
"This question by itself is simplistic so over the following sections\n",
"let's qualify the meaning.\n",
"This question by itself is simplistic so let's qualify its meaning in these ensuing sections.\n",
"\n",
"\n",
"\n",
"### *Epipelagic ocean* defined\n",
"\n",
"Before tackling *stability*\n",
"let us define the term 'epipelagic ocean'. *Epipelagic* is more or\n",
"less synomymous with *sunlit* or *photic*, appearing most often as *epipelagic zone*. \n",
"This is the upper 200 meter layer of the water column subject to downwelling \n",
"sunlight. Sunlight is in turn the energy source for primary production. We are\n",
"therefore considering the ecosystem of the upper ocean, occupied by phytoplankton,\n",
"that is the engine powering the marine food web.\n",
"*Epipelagic* is more or less synomymous with *sun illuminated* or *photic*, \n",
"appearing most often as *epipelagic zone* or *photic zone*. \n",
"This is approximately the upper 200 meter layer of the water column subjected \n",
"to downwelling sunlight. Sunlight is in turn the energy source of primary production\n",
"by photosynthesizing plankton. This is the ecosystem of the upper ocean:\n",
"The engine powering the marine food web.\n",
"\n",
"\n",
"*Epipelagic ocean* is intended to evoke manifestations of the epipelagic zone across \n",
"the earth's oceans. We have as an observational starting point three observing sites in the \n",
"northeast Pacific. Each of these sites features unprecedented data accumulated\n",
"by *shallow profiler* sensing platforms.\n",
"Our observational starting point is three observing sites located in the \n",
"northeastern Pacific Ocean. \n",
"\n",
"\n",
"```\n",
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"### Limits on observation\n",
"\n",
"\n",
"Our initial analysis will focus on the three\n",
"Our observational focus is three\n",
"[shallow profilers](https://interactiveoceans.washington.edu/technology/shallow-profiler-moorings/) \n",
"maintained by the Regional Cabled Array program. \n",
"This amounts to a direct record of the state of the upper ocean at very fine-scale\n",
"spatiotemporal scales at three related locations in the northeast Pacific Ocean.\n",
"Further interest in observation of the upper water column will subsequently pivot\n",
"to other sensor programs, particularly ARGO drifters, satellite remote sensing \n",
"of the sea surface and historical data from NOAA."
"This amounts to a direct record of the state of the upper ocean at two fine scales:\n",
"Time and depth.\n",
"From this starting point we will add other observing resources: ARGO drifters, satellite data, \n",
"NOAA buoys and so forth."
]
},
{
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"\n",
"\n",
"- depth dimension: Through the upper 200 meters on scales of centimeters to tens of meters\n",
"- physical stability: temperature, density of water, available light\n",
"- physical stability: temperature, density of water, available light, turbulence\n",
"- chemical stability: salinity, dissolved oxygen, inorganic carbon\n",
"- biological stability: nutrient concentration (nitrates), particulate distribution, fluorescence, ...\n",
"- lateral structure, scales from meters to mesoscale (hundreds of kilometers)\n",
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"### Related research topics\n",
"\n",
"\n",
"Start from epipelagic *stability* let us identify related research topics. Relevance open-ended: \n",
"\n",
"- Plankton community structure and ecology.\n",
"- plankton community structure, ecology\n",
"- Terrigenous influence"
]
},
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"### The utility of *coincidence* and *persistence*\n",
"\n",
"\n",
"*Coincidence* here refers to data structure that is present in multiple sensor streams. \n",
"*Persistence* refers to structures that persist through more than one profile. \n",
"*Coincidence* refers to ocean structure that persists across multiple sensor streams. \n",
"*Persistence* refers to structures that persist in time, i.e. for multiple consecutive observations.\n",
"\n",
"\n",
"### How stable is the epipelagic ocean?\n",
"\n",
"\n",
"The water column is well understood to be stratified. The upper layer is\n",
"the *mixed layer*, below that is a transitional layer, and below this is the upper \n",
"part of the *pelagic layer* which constitutes the bulk of the water column. In this \n",
"work we can begin with a null hypothesis that the sensor data will show these \n",
"three strata with repeatable consistency. \n",
"The water column is well understood as stratified. The upper layer is\n",
"the *mixed layer*, below that is a transitional layer called the *pycnocline*, \n",
"and below this is the *lower epipelagic layer*. ('*Pelagic*' covers the \n",
"entirety of the open ocean water column.) \n",
"\n",
"\n",
"Shortly we commence looking at depth charts that show the epipelagic depth on the vertical axis\n",
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