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Software Open Access

LayNii: A software suite for layer-fMRI

Huber, Laurentius; Benedikt, Poser; Bandettini, Peter; Arora, Kabir; Wagstyl, Konrad; Cho, Shinho; Goense, Jozien; Nothnagel, Nils; Morgan, Andrew Tyler; van den Hurk, Job; Müller, Anna Katharina; Reynolds, Richard; Glen, Daniel; Goebel, Rainer; Gulban, Omer Faruk

New programs

LN2_GEODISTANCES to measure geodesic distances in a set of voxels from another set of voxels. LN2_IFPOINTS is a simplified (and more general) version of the iterative farthest points algorithm used in LN2_COLUMNS. LN2_MASK is intended to help with voxel section for layer-profile extraction. LN2_BORDERIZE is introduced to find borders in an integer nifti (e.g. segmentation files, rim files).


LN2_MULTILATERATE algorithm is significantly improved through using pin axis geodesic distances rather than point based geodesic distances. LN2_LAYERS now have a very minimal masked smoothing applied to the equivolume and equidistance metrics. This is done to mitigate the discrete sampling effects present close to the borders. LN2_PATCH_FLATTEN minor improvements.

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