mincFindPeaks: Finds peak values in a MINC file or volume

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

Finds peak values in a MINC file or volume

Description

Inputs a MINC file or RMINC output and identifies peak voxels (given some constraints) within

Usage

mincFindPeaks(
  inputStats,
  column = 1,
  direction = "both",
  minDistance = NA,
  threshold = NA,
  posThreshold = NA,
  negThreshold = NA
)

Arguments

inputStats	Either an RMINC object or a filename from which peaks are to be determined.
column	If an RMINC object then the column name or number
direction	"both", "pos" for positive peaks only, or "neg" for negative peaks only
minDistance	minimum distance, in mm, between peaks
threshold	threshold above which to consider peaks
posThreshold	positive threshold (overrides threshold if both are given)
negThreshold	negative threshold (overrides threshold if both are given)

Details

Provides an interface to find_peaks, a command line program that comes with the MINC library.

Value

The set of peaks as a matrix. The matrix is of dimensions ntags x 7; the first three columns correspond to the first three dimensions in the same coordinates as used by mincArray; the next three columns are the x, y, and z coordinates in world space, and the 7th column is the value at that location.

Mouse-Imaging-Centre/RMINC documentation built on Feb. 24, 2025, 1:22 a.m.