Package index • bossr

Array functions of segmentation pipeline

Functions that operate on 2D, 3D, and 4D arrays

betamix_img(): Calculate threshold from image using beta mixture model

threshold_img(): Threshold an image

median_filtering(): Median filter an image

connect_components(): Connected components in an array

Post-processing summary functions

Functions that output a data.frame summarizing image information

track_components(): Track connected components in 4D array

post_process_df(): Postprocceses a data.frame that is the result of track_components

annotate_df(): Annotate data.frame

Visualization functions

Functions that take arrays or data.frames as parameters with the purpose of visualizing cell detection results

make_overlay(): Make Overlay

plot_overlay(): Plots a 3D image with an overlay