View source: R/plotPeakMatrix.R
plot the ion image map of a given mass or column of a rMSIproc peak matrix object. If the peak matrix contains data from various datasets the images will be layout horizontally or vertically. At leas mz or column must be specified.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 | plotPeakImage(
peakMatrix,
mz = NULL,
column = NULL,
matrix = "intensity",
normalization = NULL,
nrow = 2,
ncol = 2,
byrow = T,
margin = 20,
img_names = peakMatrix$names,
labels = img_names,
rotations = rep(0, length(img_names)),
mirror_x = rep(F, length(img_names)),
mirror_y = rep(F, length(img_names)),
pixel_size_um = 100,
light = 8
)
|
peakMatrix |
the peak matrix in an rMSIproc object. |
mz |
the peak mass to plot, the nearest peak mass will be ploted. |
column |
the column of the peak matrix to plot. |
matrix |
the name of the peak matrix to plot. |
normalization |
the name of normalization to use. |
nrow |
number of rows of the plotted matrix layout (only used if byrow == F) |
ncol |
number of cols of the plotted matrix layout (only used if byrow == T) |
byrow |
a bool specifing if images must be arranged in rows. |
margin |
the separation between plotted images. |
img_names |
a character vector with img names in the desierd plotting order. |
labels |
an alternative character vector with the labels to be displayed for each image. |
rotations |
a vector with the rotation of each images specified in degrees. |
mirror_x |
a bool vector specifing if each image must be flipped or not in X direction prior to rotation. |
mirror_y |
a bool vector specifing if each image must be flipped or not in Y direction prior to rotation. |
pixel_size_um |
the pixel resolution in um. |
light |
the lighting of the plotted image. |
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