Name

qdec_glmfit - wrapper for mri_glmfit that outputs a .qdec file

Synopsis

qdec_glmfit --data-table FILE --average-subject SUBJECT --analysis-name NAME [--discrete-factor FACTOR [--discrete-factor FACTOR]] [--continuous-factor FACTOR [--continuous-factor FACTOR]] --measurement MEASUREMENT --hemipshere lh|rh --smootheness SMOOTHNESS --output FILE [--working-dir DIR] [--subjects-dir DIR]

Arguments

Required Flagged Arguments

--data-table, -d FILENAME	Input qdec.table.dat file
--average-subject, -a SUBJECT	Average subject name
--analysis-name, -n STRING	Name for analysis
--measurement, -m SRING	Measurement name
--hemisphere, -h lh\|rh	Hemipshere to use
--smoothness, -t INTEGER	Smoothness to use
--output, -o FILENAME	Output .qdec filename

Optional Flagged Arguments

--working-dir, -w DIR	Directory in which to generate temporary data (default /tmp)
--subjects-dir, -s DIR	Directory in which to find the average subject (default SUBJECTS_DIR env var)
--discrete-factor, -f STRING	Discrete factor (up to 2)
--continuous-factor, -c STRING	Continuous factor (up to 2)

Description

This program internally calls mri_glmfit but provides an interface that is similar to Qdec's (the visualzation program) and has fewer, simpler options. Instead of generating a directory of results, it generates a Qdec Project File, or a .qdec file, which can be loaded in Qdec.

Examples

Example 1

./qdec_glmfit \
  --data-table ~/subjects/qdec/qdec_data_table.dat \
  --working-dir /tmp \
  --subjects-dir ~/subjects \
  --average-subject fsaverage \
  --analysis-name thickness-diagnosis_and_iq-lh10 \
  --discrete-factor diagnosis \
  --continuous-factor IQ --continuous-factor age \
  --measurement thickness \
  --hemisphere lh \
  --smoothness 10 \
  --output Test.qdec

Bugs

None

Links

FreeSurfer

Reporting Bugs

Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

Author/s

KevinTeich, NickSchmansky