FIACH: Retrospective Noise Control for fMRI

Useful functions for fMRI preprocessing.

AuthorTim Tierney
Date of publication2015-10-09 10:28:48
MaintainerTim Tierney <fiachmri@gmail.com>
LicenseGPL-2
Version0.1.2

View on CRAN

Man pages

arrMat: Array to matrix transformation.

badData: Identifies spurious observations

basisFunctions: Informed basis set

boldContrast: Maximum Theoretical BOLD signal observable

colMad: Compute Column Median Absolute Deviations

colMedian: Compute Column Medians

colsd: Compute column standard deviations

convolve1d: Finite Impulse Response filter

datatypes: Supported Datatypes

dilate: Separable Flat dilation

erode: Separable Flat Erosion

fd: Framewise Displacement

fftN: Zero Padded 1D Fourier transform

fiach: FIACH

gaussKernel: 1 dimensional Gaussian smoothing kernel

getDatatype: Determine Datatype

gmm: Gaussian Mixture Model

GUI: Graphical User Interface for using the fiach function.

hampel: Hampel Filter

highBasis: High pass filter basis set

highPass: SPM high pass filter

kaiserWin: Kaiser Window

kmeansMask: Binarize vector, matrix or array

lowBasis: Low pass filter basis set

matArr: Matrix to Array Transformation.

naSpline: Interpolate NAs

plot.gmm: Plot a Gaussian Mixture Model

pseudo: Pseudoinverse.

quantMask: Compute the Mask Vector

rawPeriodogram: Raw Periodogram

readNii: Input function for fmri data

rowMad: Compute row Median Absolute Deviations

rowMedian: Compute Row Medians

rowsd: Compute row standard deviations

rp: Realignment parameters

selectR: Interactive File Selector

sepConvolve3d: Fast 3d Convolution

sinc: Sinc Pulse

spmHrf: Canonical Haemodynamic Response Function.

spmOrth: Serial Orthogonalisation

t2Grey: Transverse Relaxation

t2sGrey: Effective Transverse Relaxation

viewR: Interactive Medical Image Viewer

zeroNa: Zero non finite values

Files in this package

FIACH
FIACH/inst
FIACH/inst/extdata
FIACH/inst/extdata/mni.nii.gz
FIACH/inst/extdata/motion_ex.nii.gz
FIACH/inst/extdata/fiach.gif
FIACH/src
FIACH/src/Makevars
FIACH/src/FIACH_src.cpp
FIACH/src/Makevars.win
FIACH/src/RcppExports.cpp
FIACH/NAMESPACE
FIACH/data
FIACH/data/datatypes.rda
FIACH/data/rp.rda
FIACH/R
FIACH/R/quantMask.r
FIACH/R/GUI.R FIACH/R/getDatatype.R FIACH/R/highPass.R FIACH/R/highBasis.R FIACH/R/lowBasis.R
FIACH/R/sysdata.rda
FIACH/R/matArr.R FIACH/R/viewR.R FIACH/R/fd.R FIACH/R/RcppExports.R FIACH/R/t2sGrey.R FIACH/R/kaiserWin.R FIACH/R/naSpline.R FIACH/R/gaussKernel.R FIACH/R/spmOrth.R FIACH/R/readNii.R FIACH/R/rawPeriodogram.R FIACH/R/kmeansMask.R FIACH/R/fiach.R FIACH/R/spmHrf.R FIACH/R/sinc.R FIACH/R/boldContrast.R FIACH/R/selectR.R
FIACH/R/plot.gmm.r
FIACH/R/t2Grey.R FIACH/R/arrMat.R FIACH/R/zzz.R FIACH/R/basisFunctions.R
FIACH/MD5
FIACH/DESCRIPTION
FIACH/man
FIACH/man/t2sGrey.Rd FIACH/man/fiach.Rd FIACH/man/colMad.Rd FIACH/man/pseudo.Rd FIACH/man/gaussKernel.Rd FIACH/man/rp.Rd FIACH/man/t2Grey.Rd FIACH/man/gmm.Rd FIACH/man/erode.Rd FIACH/man/convolve1d.Rd FIACH/man/sinc.Rd FIACH/man/arrMat.Rd FIACH/man/GUI.Rd FIACH/man/rowMad.Rd FIACH/man/spmHrf.Rd FIACH/man/highPass.Rd FIACH/man/highBasis.Rd FIACH/man/rowMedian.Rd FIACH/man/kaiserWin.Rd FIACH/man/dilate.Rd FIACH/man/lowBasis.Rd FIACH/man/datatypes.Rd FIACH/man/naSpline.Rd FIACH/man/rawPeriodogram.Rd FIACH/man/plot.gmm.Rd FIACH/man/fd.Rd FIACH/man/readNii.Rd FIACH/man/kmeansMask.Rd FIACH/man/badData.Rd FIACH/man/boldContrast.Rd FIACH/man/colsd.Rd FIACH/man/zeroNa.Rd FIACH/man/sepConvolve3d.Rd FIACH/man/rowsd.Rd FIACH/man/fftN.Rd FIACH/man/quantMask.Rd FIACH/man/hampel.Rd FIACH/man/spmOrth.Rd FIACH/man/colMedian.Rd FIACH/man/matArr.Rd FIACH/man/basisFunctions.Rd FIACH/man/selectR.Rd FIACH/man/viewR.Rd FIACH/man/getDatatype.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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