Re: [Freesurfer] data uploaded

2014-01-12 Thread charujing123
Hi Louis, I'm sorry to reply so late. I resolved my question. Thanks. All the best. Rujing Zha 2014-01-13 charujing123 发件人:Louis Nicholas Vinke 发送时间:2014-01-09 23:38 主题:Re: Re: Re: [Freesurfer] data uploaded 收件人:"Rujing Zha" 抄送:"Bruce Fischl" Hi Rujing, Sorry I missed this thread, it got

[Freesurfer] Tracula Error: bvecs and bvals don't have the same number of entries

2014-01-12 Thread Francesco Baldacchini
Hi everybody, I'm trying to run the* trac all -prep *command but after some times I get this error "bvecs and bvals don't have the same number of entries". I've checked my bvals and bvecs, which are in attach, but they seems to be formatted in the right way. What can I do? Thanks, Francesco Balda

Re: [Freesurfer] DOSS or DODS (Don't use DOSS with QDEC)

2014-01-12 Thread Douglas Greve
If you have two groups and a single covariate, when you run it with mri_glmfit create a contrast with [0 0 1 -1]. In QDEC, it will be one of the default contrasts (something like "do the two groups differ in slope?") doug On 1/12/14 5:31 AM, amirhossein manzouri wrote: Thanks Doug and how

Re: [Freesurfer] Question regarding Qdec

2014-01-12 Thread Douglas Greve
sorry, ?h.curv is the mean curvature, not gaussian On 1/12/14 5:54 PM, Douglas Greve wrote: volume is ?h.volume, which is the "volume" at a vertex (basically vertex thickness * vertex area, where vertex area is the mean of the areas of the triangle that belong to that vertex) sulc is ?h.su

Re: [Freesurfer] Question regarding Qdec

2014-01-12 Thread Douglas Greve
volume is ?h.volume, which is the "volume" at a vertex (basically vertex thickness * vertex area, where vertex area is the mean of the areas of the triangle that belong to that vertex) sulc is ?h.sulc, which is the sulcal depth of each vertex curv is ?h.curv, which is the gaussian curvature at

[Freesurfer] Question regarding Qdec

2014-01-12 Thread Dusan Hirjak
Dear Freesurfer experts, I'm using qdec to perform a statistical analysis in Freesurfer. Could someone explain the meaning of the dependent measures (which can be used in qdec) to me? What does the "volume", "sulc" and "curv" etc. mean??? What kind of information do they convey???

Re: [Freesurfer] Surface colour tksurfer

2014-01-12 Thread Bruce Fischl
Hi Matteo the code doesn't support this, but if you don't mind a bit of coding, I think you can change: tksurfer.c: line 15415 r_base = g_base = b_base = 0; I think if you change b_base to 255 the background would be blue (although I haven't tried this) cheers Bruce On Sun, 12 Jan 2014,

Re: [Freesurfer] Surface colour tksurfer

2014-01-12 Thread Douglas Greve
Hi Matteo, I don't think it can be done in tksurfer. doug On 1/12/14 9:32 AM, matteo.di...@unito.it wrote: > Dear Freesurfer experts, > I would like to change the colour of the surface in tksurfer (e.g. from > "grey" brain to "blue" brain). How can i obtain it? Thank you very much > in advance

Re: [Freesurfer] brain orientation in qdecDouglas N Greve

2014-01-12 Thread Douglas Greve
Sounds like it is some problem with the display libraries. I think someone else was having the same problem recently (ie, hemisphere displayed upside down in tksurfer). Does anyone remember? Zeke? doug On 1/12/14 5:03 AM, Schweren, LJS (med) wrote: No, in Freeview I encountered no such p

[Freesurfer] Surface colour tksurfer

2014-01-12 Thread matteo . diano
Dear Freesurfer experts, I would like to change the colour of the surface in tksurfer (e.g. from "grey" brain to "blue" brain). How can i obtain it? Thank you very much in advance! Regards Matteo ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.e

Re: [Freesurfer] DOSS or DODS (Don't use DOSS with QDEC)

2014-01-12 Thread amirhossein manzouri
Thanks Doug and how can check if the slopes are different? On Jan 12, 2014 12:33 AM, "Douglas Greve" wrote: > > Use DODS to test whether the slopes differ between the three groups. If > they do not, then use DOSS. > doug > > > > > On 1/11/14 5:03 PM, amirhossein manzouri wrote: > > Thanks Doug fo