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oce (version 0.8-8)

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

0.8-8

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

May 23rd, 2012

Functions in oce (0.8-8)

WOCE section a03

ADP (acoustic-doppler profiler) dataset

Convert ADP from beam coordinates to xyz coordinates

integrateTrapezoid

Use trapezoidal integration

Class to store acoustic Doppler profiler data

Coerce data into drifter dataset

full name of file, including path

Remove spikes from a time series

Bin-average a vector y, based on x values

Decode BCD to integer

Coerce data into ctd dataset

ctdUpdateHeader

Update a CTD header

ADV (acoustic-doppler velocimeter) dataset

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

Find indices of tiems in an ordered vector

Access or modify part of an Oce object

equatorialToLocalHorizontal

Convert from equatorial coordinates to local horizontal coordinates

Coastline of St Lawrence Estuary

Class to store hydrographic data

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

Convert lat/lon to x/y on earth

Draw isopycnal curves on an existing temperature-salinity plot

Convert a POSIXt time to a Julian day

Munk's (1966) temperature profile

Fill a gap in an oce object

drawDirectionField

Draw a direction field

Class to store acoustic Doppler velocimeter data

Gradient of a matrix

echosounder dataset

Plot a tidal fit

Format a latitude

GEOSECS station 235 data

Trim start/end portions of a CTD cast

Format a latitude-longitude pair

Coerce data into sea-level dataset

Interpret a character string as a time interval

oce.plot.sticks

Draw a stick-plot diagram

abbreviateTimeLabels

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

Create a TDR object

plot.echosounder

Plot echosounder data

Create a windrose object

GMTOffsetFromTz

Determine time offset from timezone

Seawater CTD profile

oce.write.table

Write the data portion of object to a file

Convert ADV from beam coordinates to xyz coordinates

Class to store current meter data

Current-meter record

Seawater CTD profile, without trimming of extraneous data

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

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

Name an acoustic-doppler beam.

Coerce data into coastline dataset

Coerce data into lobo dataset

Coerce data into echosounder dataset

Plot drifter data

Plot a time-series, obeying the timezone

coastlineHalifax

Coastline data set, showing Halifax Harbour

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Create a palette of colours

Substitute NA for data outside a range

Adjust the time within Oce object

Determine coordinate system for acoustic-doppler device

coastline-class

Class to store coastline data

summary.sealevel

Summarize a sealevel object

Format bytes as binary

Coerce data into met dataset

Read an ADV data file

Find the type of an oceanographic data file

Summarize a met object

Class to store hydrographic section data

Format a longitude

Bind CTD profiles together into a cross section

summary.coastline

Summarize a coastline data object

Read an oceanographic data file

Convert ADP to enu coordinates, from any other coordinates

Plot a wind rose diagram

swAbsoluteSalinity

Seawater absolute salinity, as defined in TEOS-10.

Edit an oce object

Plot a CTD profile of various quantities

Plot seawater data in a low-level fashion

Coerce data into topo dataset

Read an ADP data file

Summarize an ADV object

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

Redfield's (1934) NO3 and PO4 data

Redfield's (1934) NO3 and total CO2 data

Class to store sealevel data

Summarize a tdr object

summary.echosounder

Summarize an echosounder object

subtractBottomVelocity

Subtract bottom velocity from ADP velocity

ARGO drifter dataset

Fit a tidal model to a timeseries

swDynamicHeight

Dynamic height of seawater profile

Smooth and decimate an oce object

Calculate min, mean, and max values

Read a lobo data file

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

Return the header for an Oce data object

Correct for drift in instrument clock

Replace the heading for one instrument with the heading for another

Seawater salinity from temperature and density

Do ephemeris calculations for tidem

Grid data using Barnes algorithm

Interface to TEOS-10 library

Coriolis parameter on rotating earth

velocityStatistics

Report statistics of ADP or ADV velocities.

Plot a CTD section

Seawater density anomaly

Plot tdr (temperature-depth recorder) data

Lunar angle as function of space and time.

Parse a latitude or longitude string

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

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

Convert a POSIXt time to a sidereal time

topoInterpolate

Interpolate within a topography dataset

Plot a coastline

Read a current-meter data file

Decode integer to corresponding ASCII code

summary.drifter

Summarize a drifter object

Summarize an ADP object

Window an oce object by time or distance

Smooth a matrix.

Format a confidence interval in parenthetic notation

Seawater viscosity

Summarize a topography data object

Seawater spiciness

Seawater haline contraction coefficient

Smooth a section (preliminary version that may change)

Summarize a CTD object

Trim start/end portions of a tdr cast

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Seawater thermal expansion coefficient

Seawater density

Convert ADP or ADV from xyz coordinates to enu coordinates

tdr (temperature-data recorder) dataset

Plot cm (current meter) data

Wilson's (1963) table of seafloor spreading

Scan a coastline data file

Convert a time interval to a colon-separated string

Seawater lapse rate

Plot seawater CTD data

Seawater profile used by Reiniger and Ross (1968)

swConservativeTemperature

Seawater conservative temperature, as defined in TEOS-10.

Find the ocean bottom in an echosounder object

Tidal constituent information

Decimate a CTD profile

Add a column to a CTD file

Geodesic distance on earth

Seawater salinity from conductivity ratio, temperature and pressure

Squared buoyancy frequency for seawater

Estimate atmospheric pressure in tdr record

Show some values from a vector

Plot an image with a colour palette

Class to store LOBO data

julianCenturyAnomaly

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

Seawater freezing temperature

Seawater potential temperature

Plot meteorological data

Round a geographical positions in degrees, minutes, and seconds

Class to store meteorological data

Set location of TEOS-10 library

Extract time from an oce object

Summarize a cm (current meter) object

Convert ADV to enu coordinates, from any other coordinates

Provide axis names in adjustable sizes

Do ephemeris calculations for tidem

Class to store topographic data

Rescale values to lie in a given range

Read an topography file

Seawater CTD section

Read a CTD data file

Draw a stick-plot diagram

summary.windrose

Summarize a windrose data object

Solar angle as function of space and time.

Seawater quasi-potential density anomaly

unabbreviateYear

Determine year from various abbreviations

Write a CTD data object as a .csv file

Get a tidal prediction from a WebTide database

Class to store tidal-constituent models

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

Detrend a set of observations

Wind drag coefficient

More general form of as.POSIXlt

echosounder-class

Class to store echosounder data

Returns the first or last parts of an oce object.

Plot sealevel data

magneticDeclination

Earth magneticDeclination

Make a digital filter

Southern Oscillation Index

Predict a time series from a tidal model

redfieldPlankton

Redfield's (1934) Table II

Seawater thermal conductivity

Sample meteorological object

Seawater specific heat

Topographic dataset, showing Maritime region of Canada

oce.axis.POSIXct

Modified version of axis.POSIXct

applyMagneticDeclination

Earth magnetic declination

Print a debugging message

Plot an inset diagram

Read a meteorological data file

Summarize a tide-model object

beamUnattenuateAdp

Unattenuate ADP beam signal strength

showMetadataItem

Show metadata item

Seawater potential density anomaly

World coastline

Convert ADV or ADP data between various coordinate systems

Add a column to an oce object

eclipticalToEquatorial

Convert from ecliptical to equatorial coordinates

Format geographical positions to degrees, minutes, and hemispheres

Acceleration due to earth gravity

Extract data from an oce object

Seawater temperature from salinity and density

base class of oce package

Interpolate with Reiniger-Ross algorithm

Class to store temperature-depth recorder data

Find the root of a function by bisection

Wrapper to give normalized spectrum

Decode table-of-contents file from a datalogger

Filter a time-series, possibly recursively

Smooth an oce object

Plot temperature-salinity diagram for seawater (CTD) data

Welch periodogram

Plot topography data

read.echosounder

Read an echosounder data file

Read a section containing multiple CTD profiles

Read a drifter data file

Read an TDR temperature-depth recorder data file

Read a sea-level data file

Schmitt's (1981) NACW temperature-salinity data

sealevelHalifax

Sea-level data set, from Halifax Harbour

Add an item to object processingLog

sealevelTuktoyaktuk

Sea-level data set acquired in 1975 at Tuktoyaktuk

Subset an oce object

summary.section

Summarize a CTD section

Summarize a lobo data object

Seawater sound speed

Global topographic dataset at half-degree resolution

Convert ADP or ADV from xyz coordinates to enu coordinates

Unwrap an angle that suffers modulo-360 problems

Class to store windrose data