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'''Index'''
<<TableOfContents>>


= Name =
tkregister-sess - viewing the registration of images

= Synopsis =
tkregister-sess

= Arguments =
== Positional Arguments ==
None

== Required Flagged Arguments ==
None

== Optional Flagged Arguments ==
|| -sf sessidfile || ... ||
|| -df srchdirfile || ... ||
|| -s sessid || ... ||
|| -d srchdir || ... ||
|| -surf surfacename || display surfacename as an overlay (white) ||
|| -nosurf || don't display a surface ||
|| -rsd dir || subdirectory with data to register () ||
|| -fsd dir  || functional subdirectory (bold) ||
|| -asd dir || anatomical subdirectory (3danat) ||
|| -nocopy || do not copy registration to fsd ||
|| -sessanat || register to same-session anatomical ||
|| -anatvol dir || specify subdirectory of subjid/mri ||
|| -volview volid || starup with either <targ> or mov ||
|| -fov FOV || set window FOV in mm (default is 256) ||
|| -movscale scale || scale size of move ||
|| -plane orient || starup with orient. <cor>, sag, or ax ||
|| -slice sliceno || starup with slice. Default is 128 ||
|| -regfile file || use file instead of register.dat ||
|| -umask umask || set unix file permission mask ||
|| -version || print version and exit ||
|| -useold || use tkregister instead of tkregister2 ||
 
= Outputs =
<??> ??

= Description =
Because of movement and EPI distortion, the automatic stage can only get the registration close. Manual registration is used to check and fine-tune the automatic registration, or to perform the entire registration in the case that there are no same-session anatomicals or if the automatic registration  failed. Even if the automatic registration succeeded, always check the registration manually.

= Examples =
== Example 1 ==
tkregister-sess –sf sessid –df sesspar

This will read the register.dat created by the automatic registration and bring up two
windows, one with a brain, the other a control window.

= Bugs =
???

= See Also =
[[tkregister2]]

= Links =
FreeSurfer, FsFast

= Methods Description =
{{{
???
}}}

= References =
[[References/Lastname###]]

= Reporting Bugs =
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

= Author/s =
DougGreve