Manipulate ion count data cubes
grid_aggregate.Rdgrid_aggregate Aggregate ion count data cubes on a 2D grid.
grid_select Select ion count data cubes from a grid.
tune_grid_cell Allows calibration of the grid_cell size.
Usage
grid_aggregate(
IC,
plane,
grid_cell = NULL,
select_cell = NULL,
species = NULL,
title = character(1),
name = character(1),
corrected = FALSE,
scalar = 40/256,
save = FALSE
)
grid_select(
IC,
plane,
grid_cell = NULL,
select_cell = NULL,
species = NULL,
title = character(1),
name = character(1),
corrected = FALSE,
scalar = 40/256,
save = FALSE
)
tune_grid_cell(grid_expr, tune, mc.cores = 1)Arguments
- IC
list of Ion Count (IC) data cubes.
- plane
Character string for the dimension over which to be aggregated (vectors are allowed).
- grid_cell
Integer indicating size of cells in pixels, only exponent of base two allowed (default = NULL). If NULL then 2D raster images are created.
- select_cell
Integer indicating a grid cell to be extracted.
- species
Character string or vector with chemical species. Default is NULL and is extracted from the IC data cubes. When supplied it will be used to filter the list of IC data cubes.
- title
Character string for file name.
- name
Character string for sample name.
- corrected
If TRUE then IC is corrected with
point::cor_IC().- scalar
Numeric converting the pixels to metric dimension of measurement (default is the conversion used in this study).
- save
Boolean indicating whether to save the file in the package internal data store (default = FALSE).
- grid_expr
The function `grid_select` or `grid_aggregate` to be tuned.
- tune
A numeric vector for grid_cell size tuning (following: 2 ^ x).
- mc.cores
An integer value for multi-threading.
Value
A tibble::tibble containing the ion
counts aggregated or extracted over the plane of choice.