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AFNI, SUMA and FATCAT: v23.2.11
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11.
Tutorials, Examples
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11.3.
AFNI general behavior
11.3.
AFNI general behavior
¶
11.3.1. Using volumetric (and other) files in AFNI
‘On-the-Fly’ datasets: general syntax
Sub-brick selection:
[..]
Sub-range selection:
<..>
Calculated datasets
Auto-Tcat datasets
Make a volume of arbitary dimensions
11.3.2. Using 1D files in AFNI
Overview
1D files as AFNI datasets
Column selection with
[...]
Row selection with
{...}
Direct input of data on the command line with ‘1D:’
Transposition with
\'
11.3.3. General options for AFNI programs
Overview and note on default settings
Environment variables per-command:
-Dname=val
Checking environment variable settings:
afni
-Vname=
Overwriting:
-overwrite
Ignore the default env vars:
-skip_afnirc
Program help:
-hview
(and other opts)
Table of Contents
1. Installation and Background
2. Starting with AFNI
3. Educational resources
4. All program helps
5. AFNI (and afni)
6. SUMA
7. FATCAT
8. Statistics
9. Templates & Atlases
10. Non-human processing
11. Tutorials, Examples
11.1.
Self Guided Demo Scripts
11.2.
AFNI GUI features
11.3.
AFNI general behavior
11.3.1. Using volumetric (and other) files in AFNI
11.3.2. Using 1D files in AFNI
11.3.3. General options for AFNI programs
11.4.
APQC: afni_proc.py quality control
11.5.
FATCAT: DWI {Pre-pre-, Pre-, Post-pre}processing
11.6.
FATCAT Visualization
11.7.
Walnut Brain
11.8.
Drawing ROIs
11.9.
Cluster Explorer
11.10.
FATCAT Matrix Plot
11.11.
3dMVM Validator
11.12.
Automatic Images
11.13.
Sound features in AFNI
11.14.
Working with ROIs
11.15.
Using FreeSurfer
11.16.
Reface and Deface datasets
11.17.
SurfLayers Demo
11.18.
Meta analysis examples
12. Demo Material
13. Codex: AFNI Code Examples from publications
14. Citing
15. Developer Documentation
16. Contributors
17. Glossary
18. Main AFNI pages
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