Difference between revisions of "AFNI"
Moskalenko (talk | contribs) |
Moskalenko (talk | contribs) |
||
(4 intermediate revisions by 2 users not shown) | |||
Line 5: | Line 5: | ||
<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
− | |{{#vardefine:exe|}} <!--ADDITIONAL INFO--> | + | |{{#vardefine:exe|1}} <!--ADDITIONAL INFO--> |
|{{#vardefine:pbs|}} <!--PBS SCRIPTS--> | |{{#vardefine:pbs|}} <!--PBS SCRIPTS--> | ||
|{{#vardefine:policy|}} <!--POLICY--> | |{{#vardefine:policy|}} <!--POLICY--> | ||
Line 33: | Line 33: | ||
--> | --> | ||
==System Variables== | ==System Variables== | ||
− | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Line 40: | Line 40: | ||
<!--Run--> | <!--Run--> | ||
{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
− | + | ||
+ | This is a GUI software. Follow the instructions at https://wiki.rc.ufl.edu/doc/GUI_Programs | ||
+ | |||
+ | Basic usage: | ||
+ | module load gui | ||
+ | launch_gui_session --module afni -e afni | ||
+ | |||
+ | Connect with xpra locally using the xpra command | ||
+ | xpra attach ssh:jdoe@i111a-s222.rc.ufl.edu:3713 | ||
+ | |||
|}} | |}} | ||
<!--PBS scripts--> | <!--PBS scripts--> | ||
Line 64: | Line 73: | ||
RW Cox and JS Hyde. Software tools for analysis and visualization of FMRI Data. NMR in Biomedicine, 10:171-178, 1997. | RW Cox and JS Hyde. Software tools for analysis and visualization of FMRI Data. NMR in Biomedicine, 10:171-178, 1997. | ||
+ | |||
+ | S Gold, B Christian, S Arndt, G Zeien, T Cizadlo, DL Johnson, M Flaum, and NC Andreasen. Functional MRI statistical software packages: a comparative analysis. Human Brain Mapping, 6:73-84, 1998. | ||
|}} | |}} | ||
<!--Installation--> | <!--Installation--> |
Revision as of 20:53, 6 December 2019
Description
AFNI is a set of C programs for processing, analyzing, and displaying functional MRI (FMRI) data - a technique for mapping human brain activity. It should be used for research purposes only.
Required Modules
Serial
- afni
System Variables
- HPC_AFNI_DIR
Additional Information
This is a GUI software. Follow the instructions at https://wiki.rc.ufl.edu/doc/GUI_Programs
Basic usage:
module load gui launch_gui_session --module afni -e afni
Connect with xpra locally using the xpra command
xpra attach ssh:jdoe@i111a-s222.rc.ufl.edu:3713
Citation
If you publish research that uses afni you have to cite it as follows:
RW Cox. AFNI: Software for analysis and visualization of functional magnetic resonance neuroimages. Computers and Biomedical Research, 29:162-173, 1996.
RW Cox and JS Hyde. Software tools for analysis and visualization of FMRI Data. NMR in Biomedicine, 10:171-178, 1997.
S Gold, B Christian, S Arndt, G Zeien, T Cizadlo, DL Johnson, M Flaum, and NC Andreasen. Functional MRI statistical software packages: a comparative analysis. Human Brain Mapping, 6:73-84, 1998.