Plot method for the class `"fv"`

.

```
# S3 method for fv
plot(x, fmla, …, subset=NULL, lty=NULL, col=NULL, lwd=NULL,
xlim=NULL, ylim=NULL, xlab=NULL, ylab=NULL, ylim.covers=NULL,
legend=!add, legendpos="topleft", legendavoid=missing(legendpos),
legendmath=TRUE, legendargs=list(),
shade=fvnames(x, ".s"), shadecol="grey",
add=FALSE, log="",
mathfont=c("italic", "plain", "bold", "bolditalic"),
limitsonly=FALSE)
```

x

An object of class `"fv"`

, containing the variables to be plotted
or variables from which the plotting coordinates can be computed.

fmla

an R language formula determining which variables or expressions are plotted. Either a formula object, or a string that can be parsed as a formula. See Details.

subset

(optional) subset of rows of the data frame that will be plotted.

lty

(optional) numeric vector of values of the graphical parameter
`lty`

controlling the line style of each plot.

col

(optional) numeric vector of values of the graphical parameter
`col`

controlling the colour of each plot.

lwd

(optional) numeric vector of values of the graphical parameter
`lwd`

controlling the line width of each plot.

xlim

(optional) range of x axis

ylim

(optional) range of y axis

xlab

(optional) label for x axis

ylab

(optional) label for y axis

…

Extra arguments passed to `plot.default`

.

ylim.covers

Optional vector of \(y\) values that must be included in the
\(y\) axis. For example `ylim.covers=0`

will ensure that the
\(y\) axis includes the origin.

legend

Logical flag or `NULL`

. If `legend=TRUE`

, the algorithm
plots a legend in the top left corner of the plot,
explaining the meaning of the different line types and colours.

legendpos

The position of the legend. Either a character string keyword
(see `legend`

for keyword options)
or a pair of coordinates in the format `list(x,y)`

.
Alternatively if `legendpos="float"`

, a location will be
selected inside the plot region, avoiding the graphics.

legendavoid

Whether to avoid collisions between the legend and the graphics.
Logical value.
If `TRUE`

, the code will check for collisions between the
legend box and the graphics, and will override `legendpos`

if a collision occurs.
If `FALSE`

, the value of `legendpos`

is always respected.

legendmath

Logical. If `TRUE`

, the legend will display the
mathematical notation for each curve. If `FALSE`

, the legend text
is the identifier (column name) for each curve.

legendargs

Named list containing additional arguments to be passed to
`legend`

controlling the appearance of the legend.

shade

A character vector giving the names of two columns of `x`

,
or another type of index that identifies two columns.
When the corresponding curves are plotted,
the region between the curves will be shaded in light grey.
The object `x`

may or may not contain two columns which are designated
as boundaries for shading; they are identified by `fvnames(x, ".s")`

.
The default is to shade between these two curves
if they exist. To suppress this behaviour, set `shade=NULL`

.

shadecol

The colour to be used in the `shade`

plot.
A character string or an integer specifying a colour.

add

Logical. Whether the plot should be added to an existing plot

log

A character string which contains `"x"`

if the x axis is to
be logarithmic, `"y"`

if the y axis is to be logarithmic and
`"xy"`

or `"yx"`

if both axes are to be logarithmic.

mathfont

Character string. The font to be used for mathematical expressions in the axis labels and the legend.

limitsonly

Logical. If `FALSE`

, plotting is performed normally.
If `TRUE`

, no plotting is performed at all;
just the \(x\) and \(y\) limits of the plot are computed
and returned.

Invisible: either `NULL`

, or a data frame giving the meaning of the
different line types and colours.

This is the `plot`

method for the class `"fv"`

.

The use of the argument `fmla`

is like `plot.formula`

, but offers
some extra functionality.

The left and right hand sides of `fmla`

are evaluated,
and the results are plotted against each other
(the left side on the \(y\) axis
against the right side on the \(x\) axis).

The left and right hand sides of `fmla`

may be
the names of columns of the data frame `x`

,
or expressions involving these names. If a variable in `fmla`

is not the name of a column of `x`

, the algorithm will search for
an object of this name in the environment where `plot.fv`

was
called, and then in the enclosing environment, and so on.

Multiple curves may be specified by a single formula
of the form
`cbind(y1,y2,…,yn) ~ x`

, where `x,y1,y2,…,yn`

are
expressions involving the variables in the data frame.
Each of the variables `y1,y2,…,yn`

in turn will be plotted
against `x`

.
See the examples.

Convenient abbreviations which can be used in the formula are

the symbol

`.`

which represents all the columns in the data frame that will be plotted by default;the symbol

`.x`

which represents the function argument;the symbol

`.y`

which represents the recommended value of the function.

For further information, see `fvnames`

.

The value returned by this plot function indicates the meaning of the line types and colours in the plot. It can be used to make a suitable legend for the plot if you want to do this by hand. See the examples.

The argument `shade`

can be used to display critical bands
or confidence intervals. If it is not `NULL`

, then it should be
a subset index for the columns of `x`

, that identifies exactly
2 columns. When the corresponding curves are plotted, the region
between the curves will be shaded in light grey. See the Examples.

The default values of `lty`

, `col`

and `lwd`

can
be changed using `spatstat.options("plot.fv")`

.

Use `type = "n"`

to create the plot region and draw the axes
without plotting any data.

Use `limitsonly=TRUE`

to suppress all plotting
and just compute the \(x\) and \(y\) limits. This can be used
to calculate common \(x\) and \(y\) scales for several plots.

To change the kind of parenthesis enclosing the
explanatory text about the unit of length, use
`spatstat.options('units.paren')`

# NOT RUN { K <- Kest(cells) # K is an object of class "fv" plot(K, iso ~ r) # plots iso against r plot(K, sqrt(iso/pi) ~ r) # plots sqrt(iso/r) against r plot(K, cbind(iso,theo) ~ r) # plots iso against r AND theo against r plot(K, . ~ r) # plots all available estimates of K against r plot(K, sqrt(./pi) ~ r) # plots all estimates of L-function # L(r) = sqrt(K(r)/pi) plot(K, cbind(iso,theo) ~ r, col=c(2,3)) # plots iso against r in colour 2 # and theo against r in colour 3 plot(K, iso ~ r, subset=quote(r < 0.2)) # plots iso against r for r < 10 # Can't remember the names of the columns? No problem.. plot(K, sqrt(./pi) ~ .x) # making a legend by hand v <- plot(K, . ~ r, legend=FALSE) legend("topleft", legend=v$meaning, lty=v$lty, col=v$col) # significance bands KE <- envelope(cells, Kest, nsim=19) plot(KE, shade=c("hi", "lo")) # how to display two functions on a common scale Kr <- Kest(redwood) a <- plot(K, limitsonly=TRUE) b <- plot(Kr, limitsonly=TRUE) xlim <- range(a$xlim, b$xlim) ylim <- range(a$ylim, b$ylim) opa <- par(mfrow=c(1,2)) plot(K, xlim=xlim, ylim=ylim) plot(Kr, xlim=xlim, ylim=ylim) par(opa) # }