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Hi - I would recommend that you work through the FSLNets practical from the FSL course - a lot of this is explained there in detail. Cheers On 11 Sep 2014, at 16:22, Qasim Bukhari <[log in to unmask]> wrote: > Dear FSL experts, > Can you please help me interpret these results from FSL Nets ? > 1. arone = > 0.1117 > RtoZcorrection = > 17.4595 > arone = > 0.1117 > RtoZcorrection = > 17.6594 > > > 2. Here is another result, which is from the attached figure > sorted edge#1 nodes 7,4 value=0.997 > What does this mean ? Does this value mean the p-value ?? But sometimes I get values around 0.62 for some nodes; while all the components used in the analysis were above 0.99 p value threshold after benferroni correction. > > > 3. I m also not abe to understand the LDA percentages > [lda_percentages]=nets_lda(netmats3,19, 1) : FLD gives me > lda_percentages = > 76.1905 > > [lda_percentages]=nets_lda(netmats3,19, 3); which is two group T weighting is > lda_percentages = > 90.4762 > > I m unable to understand the practical difference between these results; which one am I supposed to use ? > > 4. On the other hand > [lda_percentages]=nets_lda(netmats3,19, 8) for libsvm gives me an error because the feature vectors in libsvm are mistakenly getting understood as group-names. > svmstruct = svmtrain([ ones(size(xa,2),1) ; zeros(size(xb,2),1) ], [xa xb]' , '-q'); > xa is 342x18 matrix. xb is 342x2 matrix. Can you please check and guide what to correct here ? > > > 5. If I m trying to find the network differences between 2 groups; and given the clusters figure; what should I be able to interpret ? I can understand that these clusters represents how the good components are connected to each other based on the netmats method that I have used. But if I m looking to find network differences in two groups; how should I select the best netmats results on which this cluster figure is based upon ?? > > Any help will be highly appreciated > > > Thanks a lot and best, > Qasim > > > > > > > > <jiscmail3.jpg><jiscmail.jpg> --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve --------------------------------------------------------------------------- Stop the cultural destruction of Tibet