append_hues: Append Hu moments columns to data on a cell_data object

In gerbeldo/tidycell: CellID Data Analysis Inside the Tidyverse

Append Hu moments columns to data on a cell_data object

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

append_hues(cell_data, image_bits, cell_id_offset = -1, return_points = F)

Arguments

cell_data	a cell_data object as loaded by rcell2::load_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.
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

This is automatically generated by the mask_mod branch of the CellID program found at: https://github.com/darksideoftheshmoo/cellID-linux/tree/mask_mod

To play with the XY coordinates of the TIFF masks you may want to set return_points = T. Or if you want to skip calculation of the Hu moments, checkout rcell2:::pic_df_from_tiff.

gerbeldo/tidycell documentation built on Aug. 15, 2022, 2:35 p.m.