Bayesian Estimation of Diffusion Parameters Obtained using Sampling Techniques with Crossing Fibers
Calls xfibres
from FSL to fit, also known as bedpostx
xfibres( infile, bvecs, bvals, mask = NULL, nfibres = 1, bet.opts = "", verbose = TRUE, njumps = NULL, burnin = NULL, burnin_noard = NULL, sampleevery = NULL, updateproposalevery = NULL, seed = NULL, noard = FALSE, allard = FALSE, nospat = FALSE, nonlinear = FALSE, cnonlinear = FALSE, rician = FALSE, f0 = FALSE, ardf0 = FALSE, opts = "" )
infile
: Input filenamebvecs
: b-vectors: matrix of 3 columns or filename of ASCII text filebvals
: b-values: vector of same length as number of rows of b-vectors or filename of ASCII text filemask
: Mask filenamenfibres
: Maximum number of fibres to fit in each voxel (default 1)bet.opts
: Options for fslbet
if mask is not suppliedverbose
: print diagnostic messagesnjumps
: num of jumps to be made by MCMC (default is 5000)burnin
: Total num of jumps at start of MCMC to be discarded (default is 0)burnin_noard
: num of burnin jumps before the ard is imposed (default is 0)sampleevery
: num of jumps for each sample (MCMC) (default is 1)updateproposalevery
: num of jumps for each update to the proposal density std (MCMC) (default is 40)seed
: for pseudo random number generatornoard
: Turn ARD off on all fibresallard
: Turn ARD on on all fibresnospat
: Initialise with tensor, not spatiallynonlinear
: Initialise with nonlinear fittingcnonlinear
: Initialise with constrained nonlinear fittingrician
: Use Rician noise modellingf0
: Add to the model an unattenuated signal compartmentardf0
: Use ard on f0opts
: Additional options for xfibres
. There should not be any left out in the current arguments, but opts
may be a way some prefer to input options.Output from system
Useful links