freesurferformats (version 0.1.18)

read.fs.curv: Read file in FreeSurfer curv format

Description

Read vertex-wise brain morphometry data from a file in FreeSurfer 'curv' format. Both the binary and ASCII versions are supported. For a subject (MRI image pre-processed with FreeSurfer) named 'bert', an example file would be 'bert/surf/lh.thickness', which contains n values. Each value represents the cortical thickness at the respective vertex in the brain surface mesh of bert.

Usage

read.fs.curv(filepath, format = "auto", with_header = FALSE)

Value

data vector of floats. The brain morphometry data, one value per vertex.

Arguments

filepath

string. Full path to the input curv file. Note: gzipped binary curv files are supported and gz binary format is assumed if the filepath ends with ".gz".

format

one of 'auto', 'asc', 'bin', 'nii' or 'txt'. The format to assume. If set to 'auto' (the default), binary format will be used unless the filepath ends with '.asc' or '.txt'. The latter is just one float value per line in a text file.

with_header

logical, whether to return named list with 'header' and 'data' parts. Only valid with FreeSurfer binary curv format.

See Also

Other morphometry functions: fs.get.morph.file.ext.for.format(), fs.get.morph.file.format.from.filename(), read.fs.mgh(), read.fs.morph.gii(), read.fs.morph(), read.fs.volume(), read.fs.weight(), write.fs.curv(), write.fs.label.gii(), write.fs.mgh(), write.fs.morph.asc(), write.fs.morph.gii(), write.fs.morph.ni1(), write.fs.morph.ni2(), write.fs.morph.smp(), write.fs.morph.txt(), write.fs.morph(), write.fs.weight.asc(), write.fs.weight()

Examples

    curvfile = system.file("extdata", "lh.thickness",
                            package = "freesurferformats", mustWork = TRUE);
    ct = read.fs.curv(curvfile);
    cat(sprintf("Read data for %d vertices. Values: min=%f, mean=%f, max=%f.\n",
                            length(ct), min(ct), mean(ct), max(ct)));