<?xml version="1.0" encoding="utf-8"?><!DOCTYPE article  PUBLIC '-//OASIS//DTD DocBook XML V4.4//EN'  'http://www.docbook.org/xml/4.4/docbookx.dtd'><article><articleinfo><title>CbuSliceTiming</title><revhistory><revision><revnumber>5</revnumber><date>2013-03-07 21:24:08</date><authorinitials>localhost</authorinitials><revremark>converted to 1.6 markup</revremark></revision><revision><revnumber>4</revnumber><date>2007-05-16 21:55:11</date><authorinitials>l18.mrc-cbu.cam.ac.uk</authorinitials></revision><revision><revnumber>3</revnumber><date>2007-05-16 21:45:16</date><authorinitials>host81-159-94-174.range81-159.btcentralplus.com</authorinitials></revision><revision><revnumber>2</revnumber><date>2007-05-16 21:43:06</date><authorinitials>l18.mrc-cbu.cam.ac.uk</authorinitials></revision><revision><revnumber>1</revnumber><date>2007-05-16 21:42:45</date><authorinitials>l18.mrc-cbu.cam.ac.uk</authorinitials></revision></revhistory></articleinfo><section><title>Cbu slice timing routines</title><para>This is just a modified version of the spm slice timing routines that allows you to use other methods of interpolation for slice timing - see <ulink url="https://lsr-wiki-02.mrc-cbu.cam.ac.uk/imaging/CbuSliceTiming/imaging/SliceTiming#">SliceTiming</ulink>. </para><para>The routine is <ulink url="https://lsr-wiki-02.mrc-cbu.cam.ac.uk/imaging/CbuSliceTiming/imaging/CbuSliceTiming?action=AttachFile&amp;do=get&amp;target=mb_5_slice_timing.m">mb_5_slice_timing.m</ulink>  It is installed in the CBU in the <code>/imaging/local/spm/common</code> directory. You could use it like this: </para><screen><![CDATA[P = spm_select(Inf, 'image', 'Select files to slice time correct');
nslices = 16; % number of slices
sliceorder = [1:2:nslices 2:2:nslices]; % interleaved ascending acquisition
refslice = 1; % slice for timing reference
slicetime = 0.115; % time to acquire one slice
TR = 2.02726;
timings = [slicetime slicetime+(TR-slicetime*nslices)];
mb_5_slice_timing(P, sliceorder, refslice, timings);]]></screen><para>Which would reproduce the standard SPM sinc slice timing. </para><para>For linear slice timing - do all the same up to: </para><screen><![CDATA[mb_5_slice_timing(P, sliceorder, refslice, timings, 'linear', 'la');]]></screen><para>This will generate linear slice timing files with an <code>la</code> prefix.  You should delete the first, and probably the last volume in the series for liner slice timing, as it will have been interpolated with missing data. </para><para><ulink url="https://lsr-wiki-02.mrc-cbu.cam.ac.uk/imaging/CbuSliceTiming/imaging/MatthewBrett#">MatthewBrett</ulink> </para></section></article>