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oce (version 0.3-1)

Analysis of Oceanographic data

Description

Supports the analysis of Oceanographic data, including ADP measurements, CTD measurements, sectional data, sea-level time series, coastline files, etc. Provides functions for calculating seawater properties such as potential temperature and density, as well as derived properties such as buoyancy frequency and dynamic height.

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Version

Install

install.packages('oce')

Monthly Downloads

2,596

Version

0.3-1

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

June 22nd, 2011

Functions in oce (0.3-1)

Coerce data into topo dataset

GMTOffsetFromTz

Determine time offset from timezone

coastlineHalifax

Coastline data set, showing Halifax Harbour

Format a longitude

beamUnattenuateAdp

Unattenuate ADP beam signal strength

Seawater CTD profile

magneticDeclination

Earth magneticDeclination

full name of file, including path

Return the header for an Oce data object

Seawater profile used by Reiniger and Ross (1968)

ctdUpdateHeader

Update a CTD header

Draw isopycnal curves on an existing temperature-salinity plot

Plot a coastline

Coastline of St Lawrence Estuary

Bin-average a vector y, based on x values

applyMagneticDeclination

Earth magnetic declination

Coriolis parameter on rotating earth

Convert ADV or ADP data between various coordinate systems

Grid data using Barnes algorithm

WOCE section a03

Create an TDR temperature-depth recorder data file

Format bytes as binary

Convert ADV from east-north-up coordinates to other coordinates

Make a digital filter

Coerce data into ctd dataset

Convert an angle from the 0:360 range to -180:180

Format a latitude-longitude pair

Print a debugging message

World coastline

Fill a gap in an oce object

Read an ADV data file

Draw a palette on the right-hand side of plot device

Decode integer to corresponding ASCII code

Draw a stick-plot diagram

Find the root of a function by bisection

Convert lat/lon to x/y on earth

Find spots in a raw vector that match a given byte sequence.

Coerce data into coastline dataset

Detrend a set of observations

Format a latitude

Welch periodogram

Trim start/end portions of a CTD cast

Time-series of wind and temperature at Halifax, Canada.

Seawater CTD profile, without trimming of extraneous data

Decimate an oce object

Plot a time-series, obeying the timezone

Decode table-of-contents file from a datalogger

Add a column to a CTD file

Convert ADV from beam coordinates to xyz coordinates

Convert ADP from east-north-up coordinates to other coordinates

Returns the first or last parts of an oce object.

Coerce data into sea-level dataset

Add an item to object processingLog

Remove spikes from a time series

Seawater conductivity

Plot pt (pressure-temperature) recorder data

Filter a time-series, possibly recursively

Interpret a character string as a time interval

Read an TDR temperature-depth recorder data file

Acceleration due to earth gravity

Bind CTD profiles together into a cross section

Decode BCD to integer

Plot topography data

Plot seawater data in a low-level fashion

Create a palette of colours

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Return the header for an Oce data object

Plot seawater CTD data

Find the type of an oceanographic data file

Find indices of tiems in an ordered vector

oce.write.table

Write the data portion of object to a file

Smooth a matrix.

Parse a latitude or longitude string

Wrapper to give normalized spectrum

Geodesic distance on earth

Redfield's (1934) NO3 and PO4 data

Format a confidence interval in parenthetic notation

Fit a tidal model to a timeseries

Create a windrose object

Extract data from an oce object

Extract pressure, salinity, or temperature from an oce object

Plot temperature-salinity diagram for seawater (CTD) data

More general form of as.POSIXlt

Predict a time series from a tidal model

Seawater CTD section

Plot a tidal fit

Determine coordinate system for acoustic-doppler device

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Plot cm (current meter) data

summary.processingLog

Summarize the processingLog of an Oce object

Smooth a section (preliminary version that may change)

Summarize a CTD object

Read a CTD data file

Seawater potential temperature

Squared buoyancy frequency for seawater

Summarize a cm (current meter) object

Convert a time interval to a colon-separated string

Seawater thermal expansion coefficient

Redfield's (1934) NO3 and total CO2 data

Tidal constituent information

swDynamicHeight

Dynamic height of seawater profile

Read a current-meter data file

summary.section

Summarize a CTD section

summary.coastline

Summarize a coastline data object

oce.axis.POSIXct

Modified version of axis.POSIXct

Munk's (1966) temperature profile

Smooth an oce object

Seawater potential density anomaly

Subset an oce object

Estimate atmospheric pressure in pt record

Plot a wind rose diagram

summary.windrose

Summarize a windrose data object

Seawater specific heat

Do ephemeris calculations for tidem

Summarize a topography data object

Summarize an ADP object

Plot a CTD section

Trim start/end portions of a pt cast

Seawater haline contraction coefficient

Seawater lapse rate

Adjust the time within Oce object

Read an ADP data file

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

Scan a coastline data file

Write a CTD data object as a .csv file

Show some values from a vector

Topographic dataset, showing Maritime region of Canada

Seawater freezing temperature

Read a sea-level data file

sealevelHalifax

Sea-level data set, from Halifax Harbour

velocityStatistics

Report statistics of ADP or ADV velocities.

ptr (pressure-temperature) dataset

Calculate min, mean, and max values

Summarize a tide-model object

Riley's (1946) observation and theory of phytoplankton concentration

Read an oceanographic data file

Seawater temperature from salinity and density

Substitute NA for data outside a range

Extract velocity from an oce object

unabbreviateYear

Determine year from various abbreviations

Do ephemeris calculations for tidem

Provide axis names in adjustable sizes

Read a lobo data file

Show min, mean, and max values

Seawater salinity from temperature and density

Seawater spiciness

Extract time from an oce object

Seawater density anomaly

Seawater density

Convert ADV to enu coordinates, from any other coordinates

Seawater viscosity

Summarize a lobo data object

Read a section containing multiple CTD profiles

Seawater sound speed

Solar angle as function of space and time.

Add a column to an oce object

Window an oce object by time or distance

Convert ADP to enu coordinates, from any other coordinates

Seawater quasi-potential density anomaly

ADP (acoustic-doppler profiler) dataset

Convert ADP or ADV from xyz coordinates to enu coordinates

summary.sealevel

Summarize a sealevel object

Replace the heading for one instrument with the heading for another

Name an acoustic-doppler beam.

topoInterpolate

Interpolate within a topography dataset

sealevelTuktoyaktuk

Sea-level data set acquited in 1975 at Tuktoyaktuk

Read an topography file

Convert ADP from beam coordinates to xyz coordinates

Unwrap an angle that suffers modulo-360 problems

Decimate a CTD profile

Seawater salinity from conductivity ratio, temperature and pressure

Wilson's (1963) table of seafloor spreading

Plot an image with a colour palette

Convert ADP or ADV from xyz coordinates to enu coordinates

oce.plot.sticks

Draw a stick-plot diagram

Edit an oce object

Interpolate with Reiniger-Ross algorithm

Plot a CTD profile of various quantities

Plot sealevel data

redfieldPlankton

Redfield's (1934) Table II

Summarize an ADV object

Rescale values to lie in a given range

Summarize a pt object

Correct for drift in instrument clock

Global topographic dataset at half-degree resolution