Usage
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 = "")
Arguments
bvecs
b-vectors: matrix of 3 columns or
filename of ASCII text file
bvals
b-values: vector of same length as number of rows of
b-vectors or filename of ASCII text file
nfibres
Maximum number of fibres to fit in each voxel (default 1)
bet.opts
Options for fslbet if mask is not supplied verbose
print diagnostic messages
njumps
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 generator
noard
Turn ARD off on all fibres
allard
Turn ARD on on all fibres
nospat
Initialise with tensor, not spatially
nonlinear
Initialise with nonlinear fitting
cnonlinear
Initialise with constrained nonlinear fitting
rician
Use Rician noise modelling
f0
Add to the model an unattenuated signal compartment
opts
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.