Handy tool to quickly and efficient create design matrices that are compatible with FSL style for group stats.
Additionally, here is a quick introduction to general linear models and constructing design matrices
usage: mk_design.py [-h] -i FILE -o PREFIX [--rm-list STR] [--ret-list STR]
[--ret-cols STR] [--demean STR] [--keep-nan] [--sep SEP]
Creates FSL compatible design matrices (as text files). Writes corresponding
inclusion and exclusion lists in addition to a file called '.all_info.txt' for
record keeping purposes.
optional arguments:
-h, --help show this help message and exit
Required Argument(s):
-i FILE, --in FILE Input TSV or CSV group design file with headers. Input
file must have a subject ID column as the first column
header.
-o PREFIX, --out PREFIX
Output prefix
Optional Argument(s):
--rm-list STR File or comma separated strings of subjects to remove.
--ret-list STR File or comma separated strings of subjects to retain.
--ret-cols STR File or comma separated strings of column indices to
retain in design matrix (e.g. "1,2,3", index count
starts at 0).
Expert Option(s):
--demean STR File or comma separated strings of column indices to
demean in design matrix (e.g. "1,2,3", index count
starts at 0). NOTE: column cannot contain non-numeric
values.
--keep-nan Keeps subjects with NaNs (missing data) from the
specified covariates (from '--ret-cols') in the design
matrix [default: False].
--sep SEP Separator string to use, valid separators/delimitors
include: tabs, commas, or spaces) [default: space].