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oce (version 0.9-13)

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

2,573

Version

0.9-13

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

January 29th, 2014

Functions in oce (0.9-13)

Coerce data into ctd dataset

Convert ADV from beam coordinates to xyz coordinates

Wrapper to give normalized spectrum

Class to store acoustic Doppler profiler data

Plot meridians on an existing map

Decode BCD to integer

Coerce data into echosounder dataset

Read a drifter data file

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

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Class to store hydrographic data

ADV (acoustic-doppler velocimeter) dataset

Coerce data into sea-level dataset

Lunar angle as function of space and time.

Bin-average a vector y, based on x values

World coastline

Geodesic distance on earth

coastlineHalifax

Coastline data set, showing Halifax Harbour

Class to store LOBO data

Plot seawater CTD data

Coerce data into coastline dataset

Plot points on a existing map

abbreviateTimeLabels

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

Bin-map an ADP object

beamUnspreadAdp

Compensate ADP signal strength for spherical spreading

Coerce data into met dataset

Convert ADV or ADP data between various coordinate systems

Format a latitude

Add a column to an oce object

Seawater CTD profile

full name of file, including path

Create a TDR object

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

Draw a stick-plot diagram

eclipticalToEquatorial

Convert from ecliptical to equatorial coordinates

Trilinear interpolation in a 3D array

Returns the first or last parts of an oce object.

Interpret a character string as a time interval

Find indices of tiems in an ordered vector

Coerce data into a lisst object

Class to store current meter data

echosounder-class

Class to store echosounder data

Seawater profile used by Reiniger and Ross (1968)

Fill a gap in an oce object

Interpolate with Reiniger-Ross algorithm

Seawater CTD profile, without trimming of extraneous data

Create a palette of colours

Name an acoustic-doppler beam.

Coerce ctd data into section dataset

oce.axis.POSIXct

Modified version of axis.POSIXct

GEOSECS station 235 data

Access or modify part of an Oce object

Smooth and decimate an oce object

Detrend a set of observations

Coerce data into drifter dataset

coastline-class

Class to store coastline data

Class to store acoustic Doppler velocimeter data

echosounder dataset

Summarize a cm (current meter) object

Convolve two time series

Coriolis parameter on rotating earth

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

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

Find lon-lat coordinates of a point on a map

ARGO drifter dataset

Partial matching of character strings or numbers

ctdUpdateHeader

Update a CTD header

Format a latitude-longitude pair

Print a debugging message

integrateTrapezoid

Use trapezoidal integration

Edit an oce object

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

Bind CTD profiles together into a cross section

julianCenturyAnomaly

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

Predict a time series from a tidal model

Seawater thermal conductivity

Seawater potential density anomaly

Find the root of a function by bisection

Draw error bars on an existing xy diagram

Grid data using Barnes algorithm

Seawater specific heat

Smooth an oce object

Round a geographical positions in degrees, minutes, and seconds

Parse a latitude or longitude string

Plot a time-series, obeying the timezone

Plot an image with a colour palette

Plot a tidal fit

Summarize a LISST object

Read an TDR temperature-depth recorder data file

plot.echosounder

Plot echosounder data

Read an ADV data file

Do ephemeris calculations for tidem

summary.echosounder

Summarize an echosounder object

Sea-surface temperature and salinity

sealevelHalifax

Sea-level data set, from Halifax Harbour

Redfield's (1934) NO3 and PO4 data

Read a sea-level data file

Seawater freezing temperature

Summarize an ADP object

Class to store hydrographic section data

Summarize an ADV object

Acceleration due to earth gravity

Plot a model-data comparison diagram.

Class to store sealevel data

Seawater potential temperature

Plot topography data

Make a digital filter

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Plot lines on a existing map

Sample meteorological object

summary.section

Summarize a CTD section

swConservativeTemperature

Seawater conservative temperature, as defined in TEOS-10.

swDynamicHeight

Dynamic height of seawater profile

Class to store temperature-depth recorder data

Contour with ability to flip x and y

Convert ADV to enu coordinates, from any other coordinates

Class to store tidal-constituent models

Convert ADP to enu coordinates, from any other coordinates

Summarize a tdr object

Munk's (1966) temperature profile

Seawater density anomaly

Plot zones on an existing map

Show some values from a vector

Class to store meteorological data

Filter a time-series, possibly recursively

Plot an inset diagram

Seawater CTD section

Convert a time interval to a colon-separated string

Plot a coastline

Add an item to object processingLog

Read a LISST data file

Replace the heading for one instrument with the heading for another

Window an oce object by time or distance

Fit a tidal model to a timeseries

redfieldPlankton

Redfield's (1934) Table II

Provide axis names in adjustable sizes

Wilson's (1963) table of seafloor spreading

Get a tidal prediction from a WebTide database

Schmitt's (1981) NACW temperature-salinity data

Class to store topographic data

Plot cm (current meter) data

unabbreviateYear

Determine year from various abbreviations

Seawater salinity from temperature and density

Read a section containing multiple CTD profiles

ADP (acoustic-doppler profiler) dataset

Subset an oce object

Write a CTD data object as a .csv file

GMTOffsetFromTz

Determine time offset from timezone

summary.drifter

Summarize a drifter object

Wind drag coefficient

Squared buoyancy frequency for seawater

Remove spikes from a time series

Read a lobo data file

Plot drifter data

Seawater density

Scan a coastline data file

Seawater quasi-potential density anomaly

Substitute NA for data outside a range

Southern Oscillation Index

drawDirectionField

Draw a direction field

Seawater spiciness

tdr (temperature-data recorder) dataset

topoInterpolate

Interpolate within a topography dataset

Trim start/end portions of a CTD cast

Summarize a lobo data object

Topographic dataset, showing Maritime region of Canada

swSoundAbsorption

Seawater sound absorption in dB/m

Rescale values to lie in a given range

Seawater viscosity

Read a current-meter data file

Seawater thermal expansion coefficient

Set location of TEOS-10 library

sealevelTuktoyaktuk

Sea-level data set acquired in 1975 at Tuktoyaktuk

Summarize a tide-model object

Tidal constituent information

Do ephemeris calculations for tidem

Extract time from an oce object

Adjust the time within Oce object

summary.sealevel

Summarize a sealevel object

Summarize a CTD object

Coerce data into lobo dataset

Cook's Endeavour cruise track

velocityStatistics

Report statistics of ADP or ADV velocities.

Solar angle as function of space and time.

Unwrap an angle that suffers modulo-360 problems

Correct for drift in instrument clock

Class to store windrose data

Convert ADP or ADV from xyz coordinates to enu coordinates

Extract data from an oce object

Gradient of a matrix

magneticDeclination

Earth magneticDeclination

applyMagneticDeclination

Earth magnetic declination

Create a windrose object

Draw isopycnal curves on an existing temperature-salinity plot

Convert ADP from beam coordinates to xyz coordinates

Smooth a matrix.

Plot contours on a existing map

Find the ocean bottom in an echosounder object

oce.write.table

Write the data portion of object to a file

Time series of NASA/GISS land-ocean temperature index

Convert a POSIXt time to a Julian day

Find great-circle segments between two points on earth

Plot LISST data

Determine coordinate system for acoustic-doppler device

Plot an image on a existing map

Locate points on a existing map

Find the type of an oceanographic data file

Plot a CTD section

Plot tdr (temperature-depth recorder) data

Plot a wind rose diagram

Read an oceanographic data file

Plot seawater data in a low-level fashion

Read a meteorological data file

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

Redfield's (1934) NO3 and total CO2 data

Read an topography file

Summarize a met object

Summarize a topography data object

Estimate atmospheric pressure in tdr record

swAbsoluteSalinity

Seawater absolute salinity, as defined in TEOS-10.

Convert ADP or ADV from xyz coordinates to enu coordinates

summary.windrose

Summarize a windrose data object

Calculate min, mean, and max values

Global topographic dataset at half-degree resolution

WOCE section a03

Coerce data into topo dataset

Coastline of St Lawrence Estuary

Decimate a CTD profile

Current-meter record

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

Format a confidence interval in parenthetic notation

Format bytes as binary

Format a longitude

equatorialToLocalHorizontal

Convert from equatorial coordinates to local horizontal coordinates

Convert lat/lon to x/y on earth

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

Decode table-of-contents file from a datalogger

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

More general form of as.POSIXlt

Plot text on a existing map

base class of oce package

OWS Papa hydrographic record during 2010

Plot meteorological data

Format geographical positions to degrees, minutes, and hemispheres

Geometries of the five world oceans.

Plot sealevel data

Draw a polar plot.

Seawater haline contraction coefficient

Seawater salinity from electrical conductivity, temperature and pressure

Seawater temperature from salinity and density

Welch periodogram

Read a CTD data file

Read an ADP data file

Grant et al. (1962) turbulence data

subtractBottomVelocity

Subtract bottom velocity from ADP velocity

World topograph data, on a 2-degree grid.

Smooth a section (preliminary version that may change)

summary.coastline

Summarize a coastline data object

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

Add a column to a CTD file

Return the header for an Oce data object

Class to store LISST data

Plot a polygon on a existing map

Decode integer to corresponding ASCII code

Plot temperature-salinity diagram for seawater (CTD) data

Plot a CTD profile of various quantities

read.echosounder

Read an echosounder data file

showMetadataItem

Show metadata item

Convert a POSIXt time to a sidereal time

Seawater lapse rate

Seawater sound speed

Trim start/end portions of a tdr cast

Interface to TEOS-10 library