oce (version 0.9-18)

plotProfile: Plot a profile, with decreasing pressure on the y axis

Description

Plot a profile, showing variation of some quantity (or quantities) with pressure, using the oceanographic convention of putting lower pressures nearer the top of the plot. This works for any oce object that has a pressure column in its data slot.

Usage

plotProfile(x,
    xtype="salinity+temperature", 
    ytype=c("pressure", "z", "depth", "sigmaTheta"),
    eos=getOption("oceEOS", default="gsw"),
    lty=1, 
    xlab=NULL, ylab=NULL,
    col="black",
    col.salinity="darkgreen",
    col.temperature="red",
    col.rho="blue",
    col.N2="brown",
    col.dpdt="darkgreen",
    col.time="darkgreen",
    pt.bg="transparent",
    grid=TRUE,
    col.grid="lightgray",
    lty.grid="dotted",
    Slim, Clim, Tlim, densitylim, N2lim, Rrholim, dpdtlim, timelim, plim, ylim,
    lwd=par("lwd"),
    xaxs="r", yaxs="r",
    cex=1, pch=1,
    useSmoothScatter=FALSE,
    df,
    keepNA=FALSE,
    type='l',
    mgp=getOption("oceMgp"),
    mar=c(1 + if (length(grep('\\+', xtype))) mgp[1] else 0,
          mgp[1]+1.5, mgp[1]+1.5, mgp[1]),
    add=FALSE, inset=FALSE,
    debug=getOption("oceDebug"),
    ...)

Arguments

x

A ctd object, e.g. as read by read.ctd.

xtype

Item(s) plotted on the x axis, either a vector of length equal to that of x@data$pressure or a text code from the list below. [object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Obje

ytype

variable to use on y axis; note that z is the negative of depth.

eos

equation of state to be used, either "unesco" or "gsw".

xlab

optional label for x axis (at top of plot).

ylab

optional label for y axis. Set to "" to prevent labelling the axis.

lty

line type for the profile.

col

colour for a general profile.

col.salinity

colour for salinity profile (see Details).

col.temperature

colour for temperature (see Details).

col.rho

colour for density (see Details).

col.N2

colour for square of buoyancy frequency (see Details).

col.dpdt

colour for dP/dt.

col.time

colour for delta-time.

pt.bg

inside colour for symbols with pch in 21:25

grid

logical, set to TRUE to get a grid.

col.grid

colour for grid.

lty.grid

line type for grid.

Slim

Optional limit for S axis

Clim

Optional limit for conductivity axis

Tlim

Optional limit for T axis

densitylim

Optional limit for density axis

N2lim

Optional limit for N2 axis

Rrholim

Optional limit for Rrho axis

dpdtlim

Optional limit for dp/dt axis

timelim

Optional limit for delta-time axis

plim

Optional limit for pressure axis, ignored unless ytype=="pressure", in which case it takes precedence over ylim.

ylim

Optional limit for y axis, which can apply to any plot type, although is overridden by plim if ytype=="pressure".

lwd

lwd value for data line

xaxs

value of par xaxs to use

yaxs

value of par yaxs to use

cex

size to be used for plot symbols (see par)

pch

code for plotting symbol (see par).

useSmoothScatter

boolean, set to TRUE to use smoothScatter instead of plot to draw the plot.

df

optional argument, passed to swN2 if provided, and if a plot using $N^2$ is requested.

keepNA

FALSE

type

type of plot to draw, using the same scheme as plot.

mgp

3-element numerical vector to use for par(mgp), and also for par(mar), computed from this. The default is tighter than the R default, in order to use more space for the data and less for the axes.

mar

value to be used with par("mar").

add

a flag that controls whether to add to an existing plot. (It makes sense to use add=TRUE in the panel argument of a coplot, for example.)

inset

set to TRUE for use within plotInset. The effect is to prevent the present function from adjusting margins, which is necessary because margin adjustment is the basis for the method u

debug

a flag that turns on debugging. Set to 1 to get a moderate amount of debugging information, or to 2 to get more.

...

optional arguments passed to other functions. A common example is to set df, for use in swN2 calculations.

Value

• None.

Details

The colours (col.salinity, etc.) are ony used if two profiles appear on a plot.

See Also

read.ctd scans ctd information from a file, plot.ctd is a general plotting function for ctd objects, and plotTS plots a temperature-salinity diagrams.

Examples

library(oce)
data(ctd)
plotProfile(ctd, xtype="temperature")