<p dir="ltr">Hi Linden,</p>
<p dir="ltr">For tckgen, we've made sure the defaults work more or less out of the box, and wouldn't generally recommend changing these unless you have good reasons for it. What is more important is to ensure that the FODs that you provide to tckgen are robust. So the parameters you need to worry about are those to dwi2response and dwi2fod. Again, unless your data are more exotic than the upfront parameters suggest, I wouldn't change the defaults for those either. The main issue I'd be worried about there is a suboptimal distribution of directions, making the higher harmonic orders unstable, or the presence of repeat directions, which would basically cause the same problem. But assuming there's no issues with the data (other than its b-value & number of directions), it should work fine...</p>
<p dir="ltr">Now, if you've already tried running these commands with default parameters, and the results are no good, then sure, you'd need to figure out why and see what can be done about it. But we'd need more information if you want us to help you out...</p>
<p dir="ltr">Cheers,<br>
Donald</p>
<p dir="ltr">--<br>
Dr J-Donald Tournier (PhD)</p>
<p dir="ltr">Senior Lecturer, Biomedical Engineering<br>
Division of Imaging Sciences & Biomedical Engineering<br>
King's College London</p>
<p dir="ltr">A: Department of Perinatal Imaging & Health, 1st Floor South Wing, St Thomas' Hospital, London. SE1 7EH<br>
T: +44 (0)20 7188 7118 ext 53613<br>
W: <a href="http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering">http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering</a><br>
</p>
<div class="gmail_quote">On 18 Dec 2014 23:46, "Linden Parkes" <<a href="mailto:linden.parkes@monash.edu">linden.parkes@monash.edu</a>> wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word"><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">Hi,</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">I’m looking for some advice on which -algorithm to use with tckgen on my data (parameters in subject line).</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">I’ve read on this list that at least 30 directions is sufficient but I see that my b=1000 is probably less than optimal. </div><br><div><div style="font-family:helvetica,arial;font-size:13px"><div style="font-family:Helvetica,Arial;line-height:normal"><font face="Helvetica">Cheers,</font></div><div style="font-family:Helvetica,Arial;line-height:normal"><font face="Helvetica">Linden</font></div><div style="font-family:Helvetica,Arial;line-height:normal"><font face="Helvetica"><br></font></div><div style="font-family:Helvetica,Arial;line-height:normal"><font face="Helvetica">——————————————————————</font></div><div style="font-family:Helvetica,Arial;line-height:normal"><font face="Helvetica"><br></font></div><div style="font-family:Helvetica,Arial;line-height:normal"><div style="text-align:-webkit-auto"><font face="Helvetica">Linden Parkes</font></div><div style="text-align:-webkit-auto"><div><font color="#7F7F7F" face="Helvetica"><br></font></div><div><font color="#7F7F7F" face="Helvetica">PhD Candidate</font></div><div><font color="#7F7F7F" face="Helvetica">Monash Clinical & Imaging Neuroscience (MCIN)</font></div><div><font color="#7F7F7F" face="Helvetica">School of Psychological Sciences</font></div><div><font color="#7F7F7F" face="Helvetica">Monash Biomedical Imaging</font></div><div><font color="#7F7F7F" face="Helvetica">Monash University</font></div><div><font color="#7F7F7F" face="Helvetica"><br></font></div><div><font face="Helvetica"><span style="color:rgb(127,127,127)">A: 770 Blackburn Rd, Clayton, 3168, </span><span style="color:rgb(127,127,127)">Vic, Australia</span></font></div><font color="#7F7F7F" face="Helvetica"><a>T: +61 3 9902 9807</a> | <a>0402 516 574</a><br></font><div><span style="color:rgb(127,127,127);text-align:-webkit-auto"><font face="Helvetica">E: <a href="mailto:linden.parkes@monash.edu" target="_blank">linden.parkes@monash.edu</a></font></span></div><div><span style="color:rgb(127,127,127);text-align:-webkit-auto"><font face="Helvetica">W: <a href="http://www.med.monash.edu.au/psych/mcin/" target="_blank">www.med.monash.edu.au/psych/mcin/</a></font></span></div><div><font face="Helvetica"><br></font></div><div><font face="Helvetica"><img src="cid:5B6C3289-6F53-4B16-86B1-02F2D4EFDA71" type="image/png"></font></div></div></div></div></div></div><br>_______________________________________________<br>
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