Longitudinal Stream Change Log
The description of the current longitudinal stream can be found here: LongitudinalProcessing
FS Version 4.5
Improvements to the new longitudinal stream (only on volume related issues, surface improvements to come).
Base Stream:
only one template estimation on the norm.mgz files of all timepoints
a new block -base-init added to recon-all for the initial template creation
this creates the maps from each TP to base and the norm_template
- then create an orig_template as orig/001.mgz to initialize the base run
- the norm_template is used as brainmask
- in gcareg and canorm the norm_template is used instead of the nu
- this setup reduced the difficulties of dealing with two spaces (two template estimations)
- should lead to significant run time improvements especially with several time points
Long Stream:
- mri_ca_label now uses the correct intensity scaling factors of the base
the talairach.lta is now created by concatenation (tpN -> base -> talairach)
FS Version 4.4
First version of a working longitudinal stream, without optimizing each step.
Main Differences:
We have one -base run and -long runs for each TP
- A base template (median) is created and used to initialize the longitudinal runs
The base is unbiased and can be viewed as an initial guess where things are
New tools: mri_robust_register (symmetric registration)
and mri_robust_template (unbiased robust template estimation)
Probabilistic fusion was added mri_fuse_segmentations to incorporate label information from the other TPs at a specific location
- All TPs have to be processed cross sectionally (independently) first
FS Version pre 4.4
These old versions of the longitudinal stream should not be used!
The stream is described here: LongitudinalProcessingPreV4.4.
Short Info:
- One of the TPs was used to initialize the others (TP1 by default)
- This lead to a bias wrt to TP1
- selecting a different TP for the initialization completely changed the results
- A fix to init TP1 with itself improved things, but did not remove the bias
Original Author: MartinReuter