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  

|
November 14, 2019 06:53PM
Sure! This is the most recent version I've run (I've played around with some of the options but haven't had any success).

afni_proc.py -subj_id $subj \
-copy_anat $pre_anat_dir/OutBrick_run_00?+orig.BRIK \
-dsets $pre_RS_dir/OutBrick_run_00?+orig.BRIK \
-blocks despike tshift align tlrc volreg blur mask regress \
-tcat_remove_first_trs 2 \
-tlrc_base MNI152_T1_2009c+tlrc \
-tlrc_NL_warp \
-volreg_align_to MIN_OUTLIER \
-volreg_align_e2a \
-volreg_tlrc_warp \
-blur_size 4.0 \
-aligh_opts_aea -cost lpa -big_move \
-mask_epi_anat yes \
-regress_anaticor_fast \
-regress_censor_motion 0.3 \
-regress_bandpass 0.01 0.1 \
-regress_apply_mot_types demean deriv \
-regress_motion_per_run \
-regress_est_blur_errts \
-regress_run_clustsim no
end
Subject Author Posted

EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 14, 2019 01:40PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

Peter Molfese November 14, 2019 04:47PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 14, 2019 06:53PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format Attachments

erobbins105 November 18, 2019 10:46AM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

Peter Molfese November 18, 2019 12:21PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 19, 2019 02:04PM