plotMassDriftComparedG: plotMassDriftCompared.
In prafols/rMSIproc: MSI Processing in C++

Description Usage Arguments Value

Creates a plot in a grid to compare the spectral alignment of an ion before and after the rMSIproc processing. For a given mass this function will display in a single figure: - The ion map. - The alignment before the processing (RAW). - The alignment after the processing (Aligned).

plotMassDriftComparedG(
  peakMatrix_RAW,
  peakMatrix_ALNG,
  peaklist_RAW,
  peaklist_ALNG,
  mass,
  error_range_ppm = 400,
  min_SNR = 10,
  mass_offset_RAW = 0,
  title_label = "",
  normalization_RAW = NA,
  normalization_ALNG = NA,
  ion_map_plot_cols = 2,
  ion_map_plot_rows = 2,
  ion_map_plot_byrow = T,
  ion_map_plot_rotations = rep(0, length(peakMatrix_ALNG$names)),
  ion_map_plot_labels = peakMatrix_ALNG$names,
  ion_map_plot_margin = 40,
  ion_map_plot_mirror_X = rep(F, length(peakMatrix_ALNG$names)),
  ion_map_plot_mirror_Y = rep(F, length(peakMatrix_ALNG$names)),
  ion_map_fixed_aspect_ratio = F
)

`peakMatrix_RAW`	an rMSIproc peak matrix obtained without the alginment routine (RAW).
`peakMatrix_ALNG`	an rMSIproc peak matrix obtained with the alginment routine (Aligned).
`peaklist_RAW`	a peak list generated with rMSIproc without the alginment routine (RAW).
`peaklist_ALNG`	a peak list generated with rMSIproc with the alginment routine (Aligned).
`mass`	the ion mass to be plot.
`error_range_ppm`	a mass range to be plot specified in ppm.
`min_SNR`	peaks with a signal to noise ratio below this parameter will be discarded.
`mass_offset_RAW`	a mass offset applied to the RAW data to manually compensate possible mass shifts.
`title_label`	the main title of the plot.
`normalization_RAW`	a vector containing the normalization value for each pixel in the RAW data or NA if no normalization should be applied.
`normalization_ALNG`	a vector containing the normalization value for each pixel in the aligned data or NA if no normalization should be applied.
`ion_map_plot_cols`	number of columns to arrange multiple images in the plotting area.
`ion_map_plot_rows`	number of rows to arrange multiple images in the plotting area.
`ion_map_plot_byrow`	a boolean idicating if the plotted images must be sorted by rows.
`ion_map_plot_rotations`	a vector with the rotation in degree to apply to each image.
`ion_map_plot_labels`	text labels to be used for each image.
`ion_map_plot_margin`	a numeric value that determines the separation between images.
`ion_map_plot_mirror_X`	a vector of booleans idicatinc if each image must be flipped horizontally.
`ion_map_plot_mirror_Y`	a vector of booleans idicatinc if each image must be flipped vertically.
`ion_map_fixed_aspect_ratio`	set this flag to true to fix the aspect ratio of the ion images.