From 5ce9bc884745a52a1c9b6e1b6a5ca9d2907ede87 Mon Sep 17 00:00:00 2001 From: Saad Jbabdi <saad@fmrib.ox.ac.uk> Date: Mon, 23 Nov 2009 09:52:12 +0000 Subject: [PATCH] add description for mode --- doc/fdt_dtifit.html | 8 ++++++-- 1 file changed, 6 insertions(+), 2 deletions(-) diff --git a/doc/fdt_dtifit.html b/doc/fdt_dtifit.html index a2ac814..bb4bd59 100644 --- a/doc/fdt_dtifit.html +++ b/doc/fdt_dtifit.html @@ -35,7 +35,7 @@ the brain.</li> outputs of <b>dtifit</b>. If the directory input option is used then the basename will be dti</li> -<li><b>Gradient directions</b> (bvecs): A text file containing a list +<li><b>Gradient directions</b> (bvecs): An ASCII text file containing a list of gradient directions applied during diffusion weighted volumes. The order of entries in this file must match the order of volumes in the input data series. @@ -50,7 +50,7 @@ Vectors are normalised to unit length within the <b>dtifit</b> code. For volumes diffusion weighting, the entry should still be present, although the direction of the vector does not matter! </li> -<li><b>b values</b> (bvals): A text file containing a list of b values applied during +<li><b>b values</b> (bvals): An ASCII text file containing a list of b values applied during each volume acquisition. The order of entries in this file must match the order of volumes in the input data and entries in the gradient directions text file. @@ -71,6 +71,7 @@ b_1 b_2 b_3 ... b_n<br></pre> <li><b><basename>_L3</b> - 3rd eigenvalue</li> <li><b><basename>_MD</b> - mean diffusivity</li> <li><b><basename>_FA</b> - fractional anisotropy</li> +<li><b><basename>_MO</b> - mode of the anisotropy (oblate ~ -1; isotropic ~ 0; prolate ~ 1)</li> <li><b><basename>_S0</b> - raw T2 signal with no diffusion weighting</li> </ul> <TABLE WIDTH=100% BORDER=0 CELLPADDING=0 CELLSPACING=0> @@ -123,7 +124,10 @@ Compulsory arguments (You MUST set one or more of): Optional arguments (You may optionally specify one or more of): -V,--verbose switch on diagnostic messages -h,--help display this message + --cni Input counfound regressors + --sse Output sum of squared errors --littlebit Only process small area of brain + --save_tensor Save the elements of the tensor -z,--zmin min z -Z,--zmax max z -y,--ymin min y -- GitLab