anatSummarize: Summarize anatGetAll results by hierarchy

In Mouse-Imaging-Centre/RMINC: Statistical Tools for Medical Imaging NetCDF (MINC) Files

Summarize anatGetAll results by hierarchy

Description

Take the results of anatGetAll and summarize a grouping label, typically the structures group in the anatomical hierarchy.

Usage

anatSummarize(
  anat,
  summarize_by = "hierarchy",
  defs = getOption("RMINC_LABEL_DEFINITIONS"),
  discard_missing = FALSE
)

Arguments

anat	The results of a call to anatGetAll
summarize_by	either a data frame with grouping information or a path to label definitions. If a data frame is passed it must have two columns: "label" containing the structure name (see colnames(anat) to check the relevant labels) and "grouping" containg the name of the group each structure belongs to.
defs	A text file containing the label definitions if summarize_by is a string
discard_missing	logical controlling how to handle structures with no ("") group information. If TRUE filter these structures, if FALSE give each structure a group label to match their structure name.

Value

A matrix with columns representing groups from the hierarchy and rows representing individuals with values equal to the sum of the individual members of each group.

Mouse-Imaging-Centre/RMINC documentation built on Nov. 12, 2022, 1:50 p.m.