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oce (version 0.9-2)

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

0.9-2

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

July 29th, 2012

Functions in oce (0.9-2)

Convert ADV or ADP data between various coordinate systems

Create a windrose object

Current-meter record

Seawater CTD profile

ADV (acoustic-doppler velocimeter) dataset

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

Coerce data into ctd dataset

Coerce data into drifter dataset

GEOSECS station 235 data

Extract data from an oce object

Coerce data into sea-level dataset

Plot seawater data in a low-level fashion

Plot a model-data comparison diagram.

ADP (acoustic-doppler profiler) dataset

Coerce data into a lisst object

coastline-class

Class to store coastline data

Draw isopycnal curves on an existing temperature-salinity plot

Coerce data into coastline dataset

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

coastlineHalifax

Coastline data set, showing Halifax Harbour

Format geographical positions to degrees, minutes, and hemispheres

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

drawDirectionField

Draw a direction field

full name of file, including path

beamUnattenuateAdp

Unattenuate ADP beam signal strength

Access or modify part of an Oce object

applyMagneticDeclination

Earth magnetic declination

Returns the first or last parts of an oce object.

WOCE section a03

Add a column to an oce object

Name an acoustic-doppler beam.

Convert ADV from beam coordinates to xyz coordinates

Format a confidence interval in parenthetic notation

Interpret a character string as a time interval

Convert lat/lon to x/y on earth

Coerce data into echosounder dataset

plot.echosounder

Plot echosounder data

World coastline

Seawater CTD profile, without trimming of extraneous data

Decode integer to corresponding ASCII code

Coerce data into topo dataset

echosounder dataset

Read a LISST data file

Bind CTD profiles together into a cross section

Draw error bars on an existing xy diagram

summary.windrose

Summarize a windrose data object

Grid data using Barnes algorithm

Plot topography data

Class to store acoustic Doppler velocimeter data

Create a palette of colours

Southern Oscillation Index

Return the header for an Oce data object

Seawater salinity from temperature and density

Decode BCD to integer

Smooth and decimate an oce object

Wind drag coefficient

Plot LISST data

Read an oceanographic data file

Bin-map an ADP object

Plot an image with a colour palette

Decimate a CTD profile

Gradient of a matrix

Seawater sound speed

echosounder-class

Class to store echosounder data

Format a latitude-longitude pair

oce.axis.POSIXct

Modified version of axis.POSIXct

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

Find indices of tiems in an ordered vector

julianCenturyAnomaly

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

Tidal constituent information

Interpolate with Reiniger-Ross algorithm

Lunar angle as function of space and time.

Plot a coastline

Plot meteorological data

base class of oce package

Class to store tidal-constituent models

Plot a tidal fit

Plot cm (current meter) data

Convert a POSIXt time to a Julian day

Read a CTD data file

Substitute NA for data outside a range

Redfield's (1934) NO3 and PO4 data

Read an topography file

Draw a polar plot.

Summarize a topography data object

Seawater CTD section

Summarize an ADV object

Predict a time series from a tidal model

Read a sea-level data file

Summarize a tdr object

Scan a coastline data file

subtractBottomVelocity

Subtract bottom velocity from ADP velocity

Convolve two time series

Seawater lapse rate

Summarize a met object

Decode table-of-contents file from a datalogger

More general form of as.POSIXlt

summary.echosounder

Summarize an echosounder object

summary.coastline

Summarize a coastline data object

A version of as.raw() that clips data to prevent warnings

Seawater spiciness

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

Munk's (1966) temperature profile

Summarize a lobo data object

Geodesic distance on earth

Trim start/end portions of a tdr cast

Seawater haline contraction coefficient

Contour with ability to flip x and y

sealevelHalifax

Sea-level data set, from Halifax Harbour

Plot a wind rose diagram

Interface to TEOS-10 library

Add an item to object processingLog

Seawater temperature from salinity and density

World topograph data, on a 2-degree grid.

Convert ADP to enu coordinates, from any other coordinates

Schmitt's (1981) NACW temperature-salinity data

Read an ADP data file

Read a lobo data file

Welch periodogram

Squared buoyancy frequency for seawater

Rescale values to lie in a given range

Summarize a LISST object

Fit a tidal model to a timeseries

Read a meteorological data file

Redfield's (1934) NO3 and total CO2 data

Replace the heading for one instrument with the heading for another

Seawater viscosity

Set location of TEOS-10 library

topoInterpolate

Interpolate within a topography dataset

Class to store sealevel data

Summarize a tide-model object

Do ephemeris calculations for tidem

Calculate min, mean, and max values

Global topographic dataset at half-degree resolution

Coerce data into met dataset

Bin-average a vector y, based on x values

Topographic dataset, showing Maritime region of Canada

Seawater potential temperature

Convert ADP from beam coordinates to xyz coordinates

Coriolis parameter on rotating earth

Seawater specific heat

Wilson's (1963) table of seafloor spreading

Remove spikes from a time series

equatorialToLocalHorizontal

Convert from equatorial coordinates to local horizontal coordinates

integrateTrapezoid

Use trapezoidal integration

GMTOffsetFromTz

Determine time offset from timezone

Plot a CTD profile of various quantities

Read a current-meter data file

Class to store hydrographic data

Fill a gap in an oce object

Class to store hydrographic section data

eclipticalToEquatorial

Convert from ecliptical to equatorial coordinates

abbreviateTimeLabels

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

Find the ocean bottom in an echosounder object

Add a column to a CTD file

Unwrap an angle that suffers modulo-360 problems

Class to store acoustic Doppler profiler data

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Get a tidal prediction from a WebTide database

Summarize an ADP object

summary.drifter

Summarize a drifter object

Coastline of St Lawrence Estuary

Detrend a set of observations

Format bytes as binary

Time series of NASA/GISS land-ocean temperature index

Plot a CTD section

Convert ADV to enu coordinates, from any other coordinates

Convert ADP or ADV from xyz coordinates to enu coordinates

Trim start/end portions of a CTD cast

Format a latitude

Seawater quasi-potential density anomaly

Sample meteorological object

ctdUpdateHeader

Update a CTD header

Draw a stick-plot diagram

Window an oce object by time or distance

Find the type of an oceanographic data file

unabbreviateYear

Determine year from various abbreviations

Round a geographical positions in degrees, minutes, and seconds

Wrapper to give normalized spectrum

Summarize a CTD object

Class to store current meter data

Plot drifter data

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

Class to store windrose data

Plot sealevel data

Acceleration due to earth gravity

Class to store LISST data

Read an TDR temperature-depth recorder data file

Format a longitude

magneticDeclination

Earth magneticDeclination

redfieldPlankton

Redfield's (1934) Table II

Make a digital filter

Plot a time-series, obeying the timezone

Correct for drift in instrument clock

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

Adjust the time within Oce object

Provide axis names in adjustable sizes

Class to store LOBO data

Read a section containing multiple CTD profiles

Summarize a cm (current meter) object

Edit an oce object

Create a TDR object

showMetadataItem

Show metadata item

Class to store meteorological data

summary.sealevel

Summarize a sealevel object

Smooth a section (preliminary version that may change)

Convert a POSIXt time to a sidereal time

oce.write.table

Write the data portion of object to a file

Seawater thermal expansion coefficient

Read a drifter data file

Smooth a matrix.

Print a debugging message

Parse a latitude or longitude string

Plot temperature-salinity diagram for seawater (CTD) data

swDynamicHeight

Dynamic height of seawater profile

Extract time from an oce object

Find the root of a function by bisection

Write a CTD data object as a .csv file

Seawater salinity from conductivity ratio, temperature and pressure

Convert ADP or ADV from xyz coordinates to enu coordinates

Seawater freezing temperature

Plot tdr (temperature-depth recorder) data

Filter a time-series, possibly recursively

tdr (temperature-data recorder) dataset

Convert a time interval to a colon-separated string

Read an ADV data file

sealevelTuktoyaktuk

Sea-level data set acquired in 1975 at Tuktoyaktuk

Class to store topographic data

Solar angle as function of space and time.

Subset an oce object

swConservativeTemperature

Seawater conservative temperature, as defined in TEOS-10.

Plot seawater CTD data

Seawater thermal conductivity

swAbsoluteSalinity

Seawater absolute salinity, as defined in TEOS-10.

Seawater potential density anomaly

Seawater density

Do ephemeris calculations for tidem

Class to store temperature-depth recorder data

velocityStatistics

Report statistics of ADP or ADV velocities.

Show some values from a vector

Seawater profile used by Reiniger and Ross (1968)

ARGO drifter dataset

Coerce data into lobo dataset

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

Determine coordinate system for acoustic-doppler device

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Smooth an oce object

Plot an inset diagram

read.echosounder

Read an echosounder data file

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

Estimate atmospheric pressure in tdr record

summary.section

Summarize a CTD section

Seawater density anomaly