nii.qc.descriptive: Descriptive statistics on voxel intensities within an ROI

In TKoscik/nifti.qc: Quality control metrics and reports for NIFTI data

Description

Descriptive statistics on voxel intensities within an ROI. Including: mean, standard deviation, median, median absolute deviation, skewness, kurtosis, 5% and 95% quantiles, and a density plot of intensities.

Usage

nii.qc.descriptive(img.nii, img.vol=1L, mask.nii, mask.vol=1L, mask.dir="gt", mask.thresh=0)

Arguments

img.nii	Full directory listing to desired nifti image (unzipped)
img.vol=1L	For multi volume images; an integer indicating the volume to load (1..N)
mask.nii	Full directory listing to desired nifti image to use for masking (unzipped). Must be identical pixel dimensions to base image.
mask.vol=1L	For multi volume images; an integer indicating the volume to load (1..N)
mask.dir="gt"	Direction to threshold the mask image to generate the desired ROI. Options include ("gt") [>] Default, "ge" [>=], "lt" [<], "le" [<=], "eq" [==]
mask.thresh=0	Value at which to threshold the mask image to generate an ROI. E.g., for binary masks, where the value 1 indicates the ROI, default of >0, will generate the appropriate mask

Value

returns a named list with descriptors of central tendency and a density plot of image intensities within the masked region

Author(s)

Timothy R. Koscik <[e-mail]>

TKoscik/nifti.qc documentation built on May 6, 2019, 4:30 p.m.