fMRItools0.7.2 package

All binary?

All integers?

Convert CIFTI, NIFTI, or GIFTI input to $T \times V$ matrix

Bandstop filter

Stacked carpetplot

Carpetplot

Check required packages for the data format

Center matrix columns

Color palette

Anatomical CompCor for HCP NIFTI and CIFTI data

CompCor: get noise components

Anatomical CompCor

Convert coordinate list to 3D array

Un-vectorize correlation matrix

Crop a 3D array

fMRI data for scrub and CompCor

Generate cosine bases for the DCT

DCT and frequency conversion

3dDespike from AFNI, step 2

3dDespike from AFNI, step 1

3dDespike from AFNI

Dilate 3D mask

PCA-based Dimension Reduction and Prewhitening

Multiple regression for parcel data

Dual Regression

Erode 3D mask

Expand realignment parameters (RPs)

FFT detrending

fMRItools: Routines for Common fMRI Processing Tasks

Format data for pscrub and CompCor

Format a path

bptf function from FSL

Get FORMAT from format

Get kwargs

Get NIFTI ROI masks

Hat matrix

image_scale

Infer fMRI data format for several inputs

Infer fMRI data format

Is this object the expected data type, and length one?

Is this numeric vector constant?

Is this an integer?

Is this object a positive number? (Or non-negative)

Is this an existing file path?

Create a mask based on vertices that are invalid

Matrix to Upper Triangular Vector

Do these character vectors match exactly?

Match user inputs to expected values

Compute mean squares from variance decomposition

Merges two kwargs

Mode of data vector

noise parameters for CompCor

Normalize BOLD data

Nuisance regression

Pad 3D Array

PCA for tall matrix

Convert data values to percent signal.

Plot FC with ggplot2

Plot FC

Wrapper to functions for reading NIFTIs

Row medians

Scale a design matrix

Robust scaling

Scale the BOLD timeseries

Sign match ICA results

Positive skew?

Sum of each voxel's neighbors

Format a path for system

Temporal filtering (bandpass, highpass, lowpass) with DCT or FFT

Unmask matrix data

Transform vector data to image

Convert vectorized data back to volume

Upper Triangular Vector to Matrix

Validate design matrix

Compute variance decomposition

Get coordinates of each voxel in a mask