results.cfg
group-analysis definition file
#data : source of data
list of nifti files entered into second-level analysis (Nsubjects x Nmeasures) defining one or multiple outcome / dependent measures
note: when entering multiple files per subject (e.g. repeated measures) enter first all files (one per subject) for measure#1, followed by all files for measure#2, etc.
note: NIFTI files may contain 3d volume-level data, fsaverage surface-level data, or ROI-to-ROI data (see conn_surf_write and conn_mtx_write to create surface/matrix nifti files)
note: enter a single 4d file or a filename with wildcards (e.g. vol_*.nii) to simplify the specification of multiple files
alternatively list of SPM.mat files containing first-level analyses (Nsubjects x 1, or Nsubjects x Nmeasures)
alternatively list of folder names containing SPM.mat first-level analyses (Nsubjects x 1, or Nsubjects x Nmeasures)
#design : design matrix
(Neffects x Nsubjects) values defining different explanatory / independent measures or subject-effects
enter one row for each modeled effect
each row should contain one value/number per subject
#contrast_between: between-subjects contrast
between-subjects contrast vector/matrix (Nc1 x Neffects)
#contrast_within : within-subjects contrast
within-subjects contrast vector/matrix (Nc2 x Nmeasures)
#contrast_names : 1st-level contrast labels
(optional, only when entering SPM.mat files in #data field) list of contrast names to select from first-level analysis files (Nmeasures x 1)
#mask : analysis mask
(optional) analysis-mask file
#analysistype : analysis type
(optional) analysis type 1: include both parametric and non-parametric stats; 2: include only parametric stats (Random Field Theory assumptions); 3: include only non-parametric stats (permutation/randomization analyses)
#folder : output folder
(optional) folder where analysis are stored; default current folder
#data_labels : data labels
(optional) labels of columns of data matrix (for display purposes)
#design_labels : design labels
(optional) labels of columns of design matrix (for display purposes)
#design_file : design file
(optional) (alternative to design_matrix field) file containing design_matrix data (.csv/.tsv/.txt/.json/.mat with Nsubjects x Neffects matrix of explanatory / independent measures)
#design_matrix : (alternative format) design matrix
(Nsubjects x Neffects) values defining different explanatory / independent measures or subject-effects
enter one row for each subject
each row should contain one value/number per modeled effect/covariate
analysis.cfg example:
#data
/data/beta_sub*.nii
/data/beta_sub02.nii
/data/beta_sub03.nii
/data/beta_sub04.nii
/data/beta_sub05.nii
/data/beta_sub06.nii
/data/beta_sub07.nii
/data/beta_sub08.nii
/data/beta_sub09.nii
/data/beta_sub10.nii
/data/beta_sub11.nii
/data/beta_sub12.nii
/data/beta_sub13.nii
#design
1 1 1 1 1 1 1 0 0 0 0 0 0
0 0 0 0 0 0 0 1 1 1 1 1 1
#contrast_between
-1 1
#folder
/data/analysis01