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oce (version 0.8-9)

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

10,616

Version

0.8-9

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

May 25th, 2012

Functions in oce (0.8-9)

WOCE section a03

oce.write.table

Write the data portion of object to a file

Read a sea-level data file

Subset an oce object

Return the header for an Oce data object

Convert ADP from beam coordinates to xyz coordinates

Class to store tidal-constituent models

Make a digital filter

ARGO drifter dataset

ctdUpdateHeader

Update a CTD header

coastlineHalifax

Coastline data set, showing Halifax Harbour

abbreviateTimeLabels

Abbreviate a list of times by removing commonalities (e.g. year)

Class to store hydrographic data

Find the ocean bottom in an echosounder object

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

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

Format a latitude-longitude pair

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Name an acoustic-doppler beam.

Convert ADV from beam coordinates to xyz coordinates

Gradient of a matrix

Create a TDR object

beamUnattenuateAdp

Unattenuate ADP beam signal strength

World coastline

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

Plot an inset diagram

Class to store current meter data

Returns the first or last parts of an oce object.

Add a column to an oce object

Coerce data into met dataset

Coerce data into echosounder dataset

echosounder dataset

Coerce data into lobo dataset

Convert a POSIXt time to a Julian day

Coerce data into sea-level dataset

Seawater CTD profile, without trimming of extraneous data

Smooth and decimate an oce object

Format bytes as binary

Remove spikes from a time series

Create a windrose object

full name of file, including path

Coerce data into topo dataset

Coerce data into ctd dataset

echosounder-class

Class to store echosounder data

Add a column to a CTD file

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

Class to store drifter data, e.g. from an ARGOS float

GEOSECS station 235 data

Fill a gap in an oce object

ADP (acoustic-doppler profiler) dataset

Class to store meteorological data

Current-meter record

coastline-class

Class to store coastline data

Format geographical positions to degrees, minutes, and hemispheres

Sample meteorological object

Plot drifter data

Decode table-of-contents file from a datalogger

Round a geographical positions in degrees, minutes, and seconds

Smooth a matrix.

Decimate a CTD profile

Find the root of a function by bisection

Coriolis parameter on rotating earth

applyMagneticDeclination

Earth magnetic declination

Bin-average a vector y, based on x values

integrateTrapezoid

Use trapezoidal integration

Extract data from an oce object

Decode BCD to integer

equatorialToLocalHorizontal

Convert from equatorial coordinates to local horizontal coordinates

Plot a coastline

eclipticalToEquatorial

Convert from ecliptical to equatorial coordinates

Format a longitude

drawDirectionField

Draw a direction field

Plot sealevel data

base class of oce package

Convert ADV or ADP data between various coordinate systems

Read an ADV data file

Wrapper to give normalized spectrum

Read a meteorological data file

Munk's (1966) temperature profile

More general form of as.POSIXlt

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

Filter a time-series, possibly recursively

Summarize a met object

Read a lobo data file

Plot a wind rose diagram

Trim start/end portions of a CTD cast

Solar angle as function of space and time.

Add an item to object processingLog

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

Lunar angle as function of space and time.

Read a current-meter data file

Draw a stick-plot diagram

magneticDeclination

Earth magneticDeclination

Seawater CTD section

showMetadataItem

Show metadata item

Seawater haline contraction coefficient

Read an TDR temperature-depth recorder data file

Smooth a section (preliminary version that may change)

Provide axis names in adjustable sizes

oce.plot.sticks

Draw a stick-plot diagram

Plot temperature-salinity diagram for seawater (CTD) data

Seawater density anomaly

Seawater salinity from temperature and density

Welch periodogram

summary.coastline

Summarize a coastline data object

read.echosounder

Read an echosounder data file

Seawater temperature from salinity and density

Do ephemeris calculations for tidem

sealevelTuktoyaktuk

Sea-level data set acquired in 1975 at Tuktoyaktuk

Convert a POSIXt time to a sidereal time

Plot seawater CTD data

swAbsoluteSalinity

Seawater absolute salinity, as defined in TEOS-10.

Plot cm (current meter) data

Read an ADP data file

Seawater potential density anomaly

Seawater spiciness

summary.echosounder

Summarize an echosounder object

Summarize a topography data object

redfieldPlankton

Redfield's (1934) Table II

Redfield's (1934) NO3 and total CO2 data

Do ephemeris calculations for tidem

Rescale values to lie in a given range

Class to store temperature-depth recorder data

Trim start/end portions of a tdr cast

Seawater freezing temperature

Plot a CTD profile of various quantities

Seawater density

Summarize an ADV object

sealevelHalifax

Sea-level data set, from Halifax Harbour

subtractBottomVelocity

Subtract bottom velocity from ADP velocity

Seawater sound speed

Estimate atmospheric pressure in tdr record

Extract time from an oce object

Seawater potential temperature

swDynamicHeight

Dynamic height of seawater profile

Unwrap an angle that suffers modulo-360 problems

summary.drifter

Summarize a drifter object

Summarize a tide-model object

Interface to TEOS-10 library

Calculate min, mean, and max values

Get a tidal prediction from a WebTide database

velocityStatistics

Report statistics of ADP or ADV velocities.

Convert ADV to enu coordinates, from any other coordinates

Set location of TEOS-10 library

Read a CTD data file

Seawater quasi-potential density anomaly

Scan a coastline data file

tdr (temperature-data recorder) dataset

Topographic dataset, showing Maritime region of Canada

Convert ADP or ADV from xyz coordinates to enu coordinates

Global topographic dataset at half-degree resolution

unabbreviateYear

Determine year from various abbreviations

Convert ADP or ADV from xyz coordinates to enu coordinates

Show some values from a vector

Wilson's (1963) table of seafloor spreading

GMTOffsetFromTz

Determine time offset from timezone

Coerce data into coastline dataset

Determine coordinate system for acoustic-doppler device

Interpolate with Reiniger-Ross algorithm

Acceleration due to earth gravity

Read a drifter data file

summary.windrose

Summarize a windrose data object

Seawater thermal conductivity

Summarize a tdr object

Summarize a CTD object

Seawater salinity from conductivity ratio, temperature and pressure

Class to store hydrographic section data

Write a CTD data object as a .csv file

Seawater profile used by Reiniger and Ross (1968)

Class to store acoustic Doppler velocimeter data

Access or modify part of an Oce object

Class to store acoustic Doppler profiler data

Seawater CTD profile

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

Print a debugging message

Draw isopycnal curves on an existing temperature-salinity plot

Plot a time-series, obeying the timezone

Detrend a set of observations

Format a confidence interval in parenthetic notation

Tidal constituent information

Interpret a character string as a time interval

Grid data using Barnes algorithm

Create a palette of colours

Wind drag coefficient

Decode integer to corresponding ASCII code

Geodesic distance on earth

Plot tdr (temperature-depth recorder) data

Class to store sealevel data

Plot seawater data in a low-level fashion

Find indices of tiems in an ordered vector

Find the type of an oceanographic data file

Read an topography file

Plot an image with a colour palette

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Class to store LOBO data

Summarize a cm (current meter) object

oce.axis.POSIXct

Modified version of axis.POSIXct

ADV (acoustic-doppler velocimeter) dataset

Convert a time interval to a colon-separated string

Parse a latitude or longitude string

Coastline of St Lawrence Estuary

Coerce data into drifter dataset

plot.echosounder

Plot echosounder data

Plot a CTD section

Edit an oce object

Redfield's (1934) NO3 and PO4 data

Schmitt's (1981) NACW temperature-salinity data

Convert lat/lon to x/y on earth

Format a latitude

Plot meteorological data

Substitute NA for data outside a range

Smooth an oce object

Seawater thermal expansion coefficient

Class to store windrose data

Bind CTD profiles together into a cross section

Correct for drift in instrument clock

Summarize an ADP object

summary.section

Summarize a CTD section

topoInterpolate

Interpolate within a topography dataset

Read an oceanographic data file

julianCenturyAnomaly

Convert a Julian-Day number to a time in julian centuries since noon on January 1, 1900.

Plot topography data

Plot a tidal fit

Predict a time series from a tidal model

Read a section containing multiple CTD profiles

Seawater viscosity

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

Fit a tidal model to a timeseries

Window an oce object by time or distance

Adjust the time within Oce object

Southern Oscillation Index

summary.sealevel

Summarize a sealevel object

Summarize a lobo data object

swConservativeTemperature

Seawater conservative temperature, as defined in TEOS-10.

Seawater lapse rate

Seawater specific heat

Squared buoyancy frequency for seawater

Class to store topographic data

Replace the heading for one instrument with the heading for another

Convert ADP to enu coordinates, from any other coordinates