load_tiff_masks: Load cell masks from BF.out TIFF files
In darksideoftheshmoo/rcell2: CellID Data Analysis Inside the Tidyverse
View source: R/load_mask_data.R
load_tiff_masks R Documentation
Load cell masks from BF.out TIFF files
Description
It is imperative that the TIFF images contain only cell boundaries, with pixel intensity values such that CellID = (2^image_bits -1) - pixel_value.
Usage
load_tiff_masks(images, image_bits, cell_id_offset = -1, return_points = F)
Arguments
images
An images dataframe, from rcell2::load_cell_data or rcell2.cellid::get_cell_data.
image_bits
an integer indicating the bit-depth on the TIFF images, such that maximum intensity is image_bits^2 -1 and minimum is zero. Typically 8 or 16.
cell_id_offset
the offset respect to maximum pixel intensity, such that cellID = maximum_intensity - boundary_intensity + cell_id_offset.
return_points
if TRUE it will add a "masks" dataframe to the cell_data object, containing the mask coordinates.
Details
Such TIFF images are automatically generated by the mask_mod branch of the CellID program found at: https://github.com/darksideoftheshmoo/cellID-linux/tree/mask_mod
darksideoftheshmoo/rcell2 documentation built on Oct. 23, 2024, 12:59 p.m.
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View source: R/load_mask_data.R
| load_tiff_masks | R Documentation |
Load cell masks from BF.out TIFF files
Description
It is imperative that the TIFF images contain only cell boundaries, with pixel intensity values such that CellID = (2^image_bits -1) - pixel_value.
Usage
load_tiff_masks(images, image_bits, cell_id_offset = -1, return_points = F)
Arguments
images |
An images dataframe, from |
image_bits |
an integer indicating the bit-depth on the TIFF images, such that maximum intensity is |
cell_id_offset |
the offset respect to maximum pixel intensity, such that |
return_points |
if TRUE it will add a "masks" dataframe to the cell_data object, containing the mask coordinates. |
Details
Such TIFF images are automatically generated by the mask_mod branch of the CellID program found at: https://github.com/darksideoftheshmoo/cellID-linux/tree/mask_mod
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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