Plot CTD data as time-series against scan number, to help with trimming extraneous data from a CTD cast.
plotScan(
x,
which = 1,
xtype = "scan",
flipy = FALSE,
type = "l",
mgp = getOption("oceMgp"),
xlim = NULL,
ylim = NULL,
mar = c(mgp[1] + 1.5, mgp[1] + 1.5, mgp[1], mgp[1]),
...,
debug = getOption("oceDebug")
)a ctd object.
integer specifying the plot to be drawn: 1
for pressure vs 'x', 2 for diff(pressure) vs 'x', 3 for temperature vs
'x', and 4 for salinity vs 'x' Here, the value of 'x' is determined by
xtype.
Character string indicating variable for the x axis. The
permitted values are "scan" (the default), "time" and "index".
The last of these is created by using seq_along() on the pressure
column (which is assumed to be present in any ctd object).
Only xtype="index" is guaranteed to work for all objects, and indeed
that value is used, if either "scan" or "time" is requested, but
unavailable.
Logical value, ignored unless which is 1. If flipy
is TRUE, then a pressure plot will have high pressures at the bottom
of the axis.
Character indicating the line type, as for plot.default(). The default
is "l", meaning to connect data with line segments. Another good choice is
"o", to add points at the data.
Three-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.
Limits on the x value. The default, NULL, is to select this
from the data.
Limits on the y value. The default, NULL, is to select this
from the data.
Four-element vector be used with par("mar"). If set
to NULL, then par("mar") is used. A good choice for a TS diagram
with a palette to the right is mar=par("mar")+c(0, 0, 0, 1)).
Optional arguments passed to plotting functions.
an integer specifying whether debugging information is
to be printed during the processing. This is a general parameter that
is used by many oce functions. Generally, setting debug=0
turns off the printing, while higher values suggest that more information
be printed. If one function calls another, it usually reduces the value of
debug first, so that a user can often obtain deeper debugging
by specifying higher debug values.
On 2022-12-07, xtype was expanded to include "index", and
an undocumented multi-panel feature was removed.
Dan Kelley
Other functions that plot oce data:
download.amsr(),
plot,adp-method,
plot,adv-method,
plot,amsr-method,
plot,argo-method,
plot,bremen-method,
plot,cm-method,
plot,coastline-method,
plot,ctd-method,
plot,gps-method,
plot,ladp-method,
plot,landsat-method,
plot,lisst-method,
plot,lobo-method,
plot,met-method,
plot,odf-method,
plot,rsk-method,
plot,satellite-method,
plot,sealevel-method,
plot,section-method,
plot,tidem-method,
plot,topo-method,
plot,windrose-method,
plot,xbt-method,
plotProfile(),
plotTS(),
tidem-class
Other things related to ctd data:
CTD_BCD2014666_008_1_DN.ODF.gz,
[[,ctd-method,
[[<-,ctd-method,
as.ctd(),
cnvName2oceName(),
ctd,
ctd-class,
ctd.cnv.gz,
ctdDecimate(),
ctdFindProfiles(),
ctdFindProfilesRBR(),
ctdRaw,
ctdRepair(),
ctdTrim(),
ctd_aml.csv.gz,
d200321-001.ctd.gz,
d201211_0011.cnv.gz,
handleFlags,ctd-method,
initialize,ctd-method,
initializeFlagScheme,ctd-method,
oceNames2whpNames(),
oceUnits2whpUnits(),
plot,ctd-method,
plotProfile(),
plotTS(),
read.ctd(),
read.ctd.aml(),
read.ctd.itp(),
read.ctd.odf(),
read.ctd.odv(),
read.ctd.saiv(),
read.ctd.sbe(),
read.ctd.ssda(),
read.ctd.woce(),
read.ctd.woce.other(),
setFlags,ctd-method,
subset,ctd-method,
summary,ctd-method,
woceNames2oceNames(),
woceUnit2oceUnit(),
write.ctd()
library(oce)
data(ctdRaw)
plotScan(ctdRaw)
abline(v = c(130, 350), col = "red") # useful for ctdTrim()
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