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oce (version 0.8-1)

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

2,416

Version

0.8-1

License

GPL (>= 2)

Maintainer

Dan Kelley

Last Published

October 26th, 2011

Functions in oce (0.8-1)

Detrend a set of observations

Remove spikes from a time series

Seawater CTD profile

Coerce data into ctd dataset

coastline-class

Class to store coastline data

Convert lat/lon to x/y on earth

Access or modify part of an Oce object

Seawater CTD profile, without trimming of extraneous data

Add a column to an oce object

Class to store current meter data

Plot a coastline

Substitute NA for data outside a range

ARGO drifter dataset

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

ADP (acoustic-doppler profiler) dataset

Class to store LOBO data

ADV (acoustic-doppler velocimeter) dataset

Class to store acoustic Doppler velocimeter data

Format a latitude-longitude pair

Create an TDR temperature-depth recorder data file

Decode table-of-contents file from a datalogger

Acceleration due to earth gravity

coastlineHalifax

Coastline data set, showing Halifax Harbour

Plot seawater CTD data

Returns the first or last parts of an oce object.

Decode BCD to integer

Name an acoustic-doppler beam.

Convert ADV from beam coordinates to xyz coordinates

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

Interpolate with Reiniger-Ross algorithm

Add a column to a CTD file

Parse a latitude or longitude string

Find indices of tiems in an ordered vector

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

Convert ADV or ADP data between various coordinate systems

Plot cm (current meter) data

Rescale values to lie in a given range

Fill a gap in an oce object

Coerce data into topo dataset

Plot a CTD profile of various quantities

Plot a tidal fit

Class to store hydrographic data

Seawater profile used by Reiniger and Ross (1968)

Coerce data into a lisst object

Trim start/end portions of a pt cast

Convert ADP from beam coordinates to xyz coordinates

Coerce data into lobo dataset

magneticDeclination

Earth magneticDeclination

Coerce data into coastline dataset

Welch periodogram

Read a lobo data file

Redfield's (1934) NO3 and total CO2 data

Decimate an oce object

Smooth a matrix.

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

beamUnattenuateAdp

Unattenuate ADP beam signal strength

More general form of as.POSIXlt

Munk's (1966) temperature profile

Format a longitude

Wrapper to give normalized spectrum

Coerce data into sea-level dataset

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

Wind drag coefficient

Plot a time-series, obeying the timezone

Coastline of St Lawrence Estuary

World coastline

Find the type of an oceanographic data file

GEOSECS station 235 data

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

Convert a time interval to a colon-separated string

Determine coordinate system for acoustic-doppler device

Schmitt's (1981) NACW temperature-salinity data

Bind CTD profiles together into a cross section

Return the header for an Oce data object

Draw isopycnal curves on an existing temperature-salinity plot

Trim start/end portions of a CTD cast

Estimate atmospheric pressure in pt record

Coerce data into drifter dataset

Find the root of a function by bisection

Format a confidence interval in parenthetic notation

Extract data from an oce object

coastlineMaritimes

Coastline data set, showing Maritime provinces of Canada

Interpret a character string as a time interval

Class to store acoustic Doppler profiler data

applyMagneticDeclination

Earth magnetic declination

Coriolis parameter on rotating earth

Edit an oce object

base class of oce package

Class to store pressure-temperature recorder data

oce.axis.POSIXct

Modified version of axis.POSIXct

Print a debugging message

Plot topography data

Read a drifter data file

summary.coastline

Summarize a coastline data object

Plot drifter data

oce.write.table

Write the data portion of object to a file

Make a digital filter

sealevelTuktoyaktuk

Sea-level data set acquited in 1975 at Tuktoyaktuk

summary.windrose

Summarize a windrose data object

Plot sealevel data

Seawater conductivity

Tidal constituent information

Summarize a pt object

topoInterpolate

Interpolate within a topography dataset

Coerce data into echosounder dataset

Plot seawater data in a low-level fashion

Predict a time series from a tidal model

Add an item to object processingLog

Smooth a section (preliminary version that may change)

GMTOffsetFromTz

Determine time offset from timezone

Summarize a cm (current meter) object

Seawater freezing temperature

summary.section

Summarize a CTD section

Southern Oscillation Index

velocityStatistics

Report statistics of ADP or ADV velocities.

Write a CTD data object as a .csv file

Read an ADP data file

Window an oce object by time or distance

Class to store topographic data

Show some values from a vector

Decimate a CTD profile

Seawater specific heat

Seawater density

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

Class to store hydrographic section data

Summarize an ADV object

Convert ADP or ADV from xyz coordinates to enu coordinates

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

Seawater spiciness

Class to store sealevel data

Create a palette of colours

numberAsPOSIXct

Convert a numeric time to a POSIXct time

Geodesic distance on earth

Convert a POSIXt time to a Julian day

Seawater salinity from conductivity ratio, temperature and pressure

Calculate min, mean, and max values

Plot an inset diagram

Plot a CTD section

summary.sealevel

Summarize a sealevel object

Seawater quasi-potential density anomaly

Plot temperature-salinity diagram for seawater (CTD) data

Class to store tidal-constituent models

Read a CTD data file

oce.plot.sticks

Draw a stick-plot diagram

Unwrap an angle that suffers modulo-360 problems

Read an TDR temperature-depth recorder data file

Seawater potential density anomaly

Do ephemeris calculations for tidem

Seawater potential temperature

Seawater temperature from salinity and density

Scan a coastline data file

Adjust the time within Oce object

sealevelHalifax

Sea-level data set, from Halifax Harbour

Read a section containing multiple CTD profiles

Fit a tidal model to a timeseries

Summarize a topography data object

Replace the heading for one instrument with the heading for another

Provide axis names in adjustable sizes

Read a current-meter data file

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

Plot a wind rose diagram

Topographic dataset, showing Maritime region of Canada

Read a sea-level data file

Summarize a LISST object

Global topographic dataset at half-degree resolution

Read an topography file

showMetadataItem

Show metadata item

swDynamicHeight

Dynamic height of seawater profile

eclipticalToEquatorial

Convert from ecliptical to equatorial coordinates

Summarize a lobo data object

Seawater sound speed

equatorialToLocalHorizontal

Convert from equatorial coordinates to local horizontal coordinates

Sample meteorological object

Grid data using Barnes algorithm

Redfield's (1934) NO3 and PO4 data

Seawater CTD section

Squared buoyancy frequency for seawater

Seawater lapse rate

Seawater salinity from temperature and density

Filter a time-series, possibly recursively

Convolve two time series

Class to store windrose data

Current-meter record

abbreviateTimeLabels

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

Create a windrose object

Plot tdr (temperature-depth recorder) data

Read an ADV data file

Summarize a met object

Find the ocean bottom in an echosounder object

Read an oceanographic data file

Plot pt (pressure-temperature) recorder data

Plot an image with a colour palette

Subset an oce object

Bin-map an ADP object

Seawater thermal expansion coefficient

Format bytes as binary

ctdUpdateHeader

Update a CTD header

Class to store LISST data

Summarize a CTD object

Solar angle as function of space and time.

Seawater density anomaly

Lunar angle as function of space and time.

Coerce data into met dataset

Format geographical positions to degrees, minutes, and hemispheres

echosounder-class

Class to store echosounder data

Extract time from an oce object

Convert ADP or ADV from xyz coordinates to enu coordinates

full name of file, including path

Draw a stick-plot diagram

Seawater viscosity

echosounder dataset

swConservativeTemperature

Seawater conservative temperature, as defined in TEOS-10.

integrateTrapezoid

Use trapezoidal integration

Format a latitude

Gradient of a matrix

Plot LISST data

swAlphaOverBeta

Ratio of seawater thermal expansion coefficient to haline contraction coefficient

plot.echosounder

Plot echosounder data

Convert ADV to enu coordinates, from any other coordinates

Convert ADP to enu coordinates, from any other coordinates

tdr (temperature-data recorder) dataset

Plot meteorological data

redfieldPlankton

Redfield's (1934) Table II

unabbreviateYear

Determine year from various abbreviations

Contour with ability to flip x and y

Correct for drift in instrument clock

Bin-average a vector y, based on x values

julianCenturyAnomaly

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

Smooth an oce object

Seawater haline contraction coefficient

Class to store temperature-depth recorder data

Read an TDR temperature-depth recorder data file

Plot a model-data comparison diagram.

read.echosounder

Read an echosounder data file

swAbsoluteSalinity

Seawater absolute salinity, as defined in TEOS-10.

ptr (pressure-temperature) dataset

Read a meteorological data file

Create a TDR object

Interface to TEOS-10 library

Round a geographical positions in degrees, minutes, and seconds

Trim start/end portions of a tdr cast

Summarize an ADP object

summary.echosounder

Summarize an echosounder object

summary.drifter

Summarize a drifter object

Do ephemeris calculations for tidem

Decode integer to corresponding ASCII code

Summarize a tide-model object

Estimate atmospheric pressure in tdr record

Wilson's (1963) table of seafloor spreading

Class to store meteorological data

Get a tidal prediction from a WebTide database

Convert a POSIXt time to a sidereal time

subtractBottomVelocity

Subtract bottom velocity from ADP velocity

Summarize a tdr object

Set location of TEOS-10 library

WOCE section a03

drawDirectionField

Draw a direction field

ARGO drifter dataset

Read a LISST data file