XFM2DEF(1)

✨ XFM2DEF(1) ✨

okay bestie, welcome to the MINC User's Guide glow-up, and this is the manual for xfm2def 💅

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🌸 NAME 🌸

xfm2def — convert a MNI transform file to a deformation volume 🦋

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🌈 SYNOPSIS 🌈

xfm2def [options] input.xfm def_vol.mnc

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💖 DESCRIPTION 💖

so like, xfm2def takes an input transform input.xfm — and bestie, that file can literally be a whole stack of concatenated transforms all chillin' in one single xfm file — and converts the whole thing into one single deformation volume that gets output as def_vol.mnc. no cap. 🫶

⚠️ but heads up: the output is not a transform file itself. nope. it's giving raw volume energy. so if you actually wanna use it in a MINC transform, you gotta go make yourself an .xfm file like this:

MNI Transform File

Transform_Type = Grid_Transform;
Displacement_Volume = def_vol.mnc;

and the resolution + sampling of the deformation grid? you have to specify that. if you don't, it'll just fall back to a default size, which is 100x100x100 with 1mm steps, centred around the origin. slay, but also specify it yourself if you care, iykyk 💀

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🎀 OPTIONS 🎀

• -help — prints a lil summary of the command-line options and dips out. 👋
• -version — prints the program's version number and exits. iconic.
• -verbose — prints out extra progress info while it's running, so you can watch it cook. 🔥
• -clobber — overwrites any existing output file. it's giving destructive main character energy, be careful bestie 💅
• -xnelements nx — number of elements along the xspace dimension.
• -ynelements ny — number of elements along the yspace dimension.
• -znelements nz — number of elements along the zspace dimension.
• -xstep xstep — step between voxels along the xspace dimension.
• -ystep ystep — step between voxels along the yspace dimension.
• -zstep zstep — step between voxels along the zspace dimension.
• -xstart xstart — position of centre of first voxel along the xspace dimension.
• -ystart ystart — position of centre of first voxel along the yspace dimension.
• -zstart zstart — position of centre of first voxel along the zspace dimension.
• -xdircos x1 x2 x3 — direction cosines for the xspace dimension.
• -ydircos y1 y2 y3 — direction cosines for the yspace dimension.
• -zdircos z1 z2 z3 — direction cosines for the zspace dimension.

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👑 AUTHOR 👑

Andrew Janke 🌟

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🧚 COPYRIGHTS 🧚

Copyright © 2010 Andrew Janke - a.janke@gmail.com

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and that's the whole page, bestie 🫶 this lil beauty comes to you from the MINC User's Guide, dated $Date: 2010-08-11 04:06:42 $, and it goes by XFM2DEF(1). periodt. 💖✨