AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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nic
December 20, 2016 11:20AM
Hi Gang,

Thank you for your quick answer! I was under the wrong impression that -bsVars is only to be used if I have two groups or more.

### I followed your suggestion but got the following error:
** Error:
Failed at GLT No. 1! Make sure that the model or GLT specification syntax is correct.


### This was the cmd:
3dMVM -prefix $output_dir/mvm_time_age \
-mask $output_dir/some_mask_intersection_dia1+tlrc \
-bsVars 'Age' \
-wsVars 'Time' \
-qVars 'Age' \
-num_glt 8 \
-gltLabel 1 t0_Age -gltCode 1 'Time : 1*t0 Age : 1*Age' \
-gltLabel 2 t1_Age -gltCode 2 'Time : 1*t1 Age : 1*Age' \
-gltLabel 3 t2_Age -gltCode 3 'Time : 1*t2 Age : 1*Age' \
-gltLabel 4 t3_Age -gltCode 4 'Time : 1*t3 Age : 1*Age' \
-gltLabel 5 t4_Age -gltCode 5 'Time : 1*t4 Age : 1*Age' \
-gltLabel 6 t5_Age -gltCode 6 'Time : 1*t5 Age : 1*Age' \
-gltLabel 7 t6_Age -gltCode 7 'Time : 1*t6 Age : 1*Age' \
-gltLabel 8 t7_Age -gltCode 8 'Time : 1*t7 Age : 1*Age' \
-dataTable \
Subj Time Gender Group Age InputFile \
01 t0 Male Control 67 $input_dir/01.results/stats.01_REML+tlrc'[bh#0_Coef]' \
...


### This is another warning message I got - does it have to do with the glts?
...
Warning messages:
1: NAs introduced by coercion
2: NAs introduced by coercion
3: NAs introduced by coercion
4: NAs introduced by coercion
5: NAs introduced by coercion
6: NAs introduced by coercion
7: NAs introduced by coercion
8: NAs introduced by coercion
Loading required package: lme4
Loading required package: Matrix
Loading required package: reshape2
Loading required package: lsmeans
Loading required package: estimability
************
Welcome to afex. Important changes in the current version:
- Functions for ANOVAs have been renamed to: aov_car(), aov_ez(), and aov_4().
- ANOVA functions return an object of class 'afex_aov' as default, see: ?aov_car
- 'afex_aov' objects can be passed to lsmeans for contrasts and follow-up tests.
- Reset previous (faster) behavior via: afex_options(return_aov='nice')
- Many more arguments can now be set globally via options, see: afex_options()
************
Warning message:
package ‘lsmeans’ was built under R version 3.2.3
Loading required package: car
Warning message:
package ‘car’ was built under R version 3.2.3

++++++++++++++++++++++++++++++++++++++++++++++++++++
***** Summary information of data structure *****
...


Thank you so much for your help!

Nic
Subject Author Posted

3dMVM one group two within subj variables

nic December 19, 2016 03:55PM

Re: 3dMVM one group two within subj variables

gang December 20, 2016 08:15AM

Re: 3dMVM one group two within subj variables

nic December 20, 2016 11:20AM

Re: 3dMVM one group two within subj variables

gang December 20, 2016 12:30PM