"xifti" cortical componentsCoerce a path to a GIFTI file, metric "gifti" object, data matrix or vector to a
data matrix representing cortical data (and optionally a corresponding mask).
That is, entries for xifti$data$cortex_[left/right] and
xifti$meta$cortex$medial_wall_mask$[left/right]. If cortex is
a path to a GIFTI file or a metric "gifti" object, any column names or
a non-empty label table will also be extracted.
make_cortex(
cortex,
mwall = NULL,
cortex_is_masked = NULL,
rm_blank_mwall = TRUE,
rm_bad_mwall = TRUE,
mwall_values = NULL,
side = NULL,
mwall_source = NULL
)A path to a metric GIFTI file, metric "gifti" object, or
numeric vector/matrix representing cortical data.
If cortex is a path to a metric GIFTI file or metric "gifti"
object, the column names and the label table will also be extracted if they
exist in the GIFTI.
A path to a metric GIFTI file, metric "gifti" object,
\(V_{[L/R]} x 1\) logical matrix or length \(V_{[L/R]}\) logical vector
representing the medial wall mask. FALSE values should indicate
vertices that make up the medial wall. If the medial wall is unknown, use
NULL (default).
Has the medial wall been masked from cortex
yet? NULL (default) indicates whether it has been masked or not is
unknown.
If !cortex_is_masked, cortex should be \(V_{[L/R]} x T\).
If cortex_is_masked, cortex should be
\((V_{[L/R]} - mwall_{[L/R]}) x T\). If is.null(cortex_is_masked),
it may be either or.
If the medial wall mask is all TRUE
(indicating no medial wall vertices), should it be discarded? Default:
TRUE. If FALSE, keep it.
If the medial wall mask doesn't match up with the
data (e.g. the vertex count doesn't add up), should it be discarded?
Default: TRUE. If FALSE, raise an error.
If the medial wall mask was not provided (or if it was
discarded), infer it from rows in cortex that are constantly one of
these values. Example: c(0, NA, NaN). If NULL (default),
do not attempt to infer the medial wall mask from the data values.
"left" or "right"? Just used to print warnings.
Description of where the mwall came from. Just used to print warnings.
A list with components "data", "mwall", "col_names" and "labels".