Nick Tustison

The resulting affine transform ``` #Insight Transform File V1.0 #Transform 0 Transform: AffineTransform_double_2_2 Parameters: 0.951479434967041 0.05314630642533302 -0.15686210989952087 1.020974040031433 4.509864330291748 2.1678619384765625 FixedParameters: 125.27064514160156 129.2100067138672 ``` shows that the translation in x...

Please see this [thread](https://github.com/ANTsX/ANTs/issues/444) where these issues are discussed.

``antsRegistration``, as defined in ANTsR, is used more like a script which simplifies the underlying ``antsRegistration`` tool in ANTs. If you need to perform your experiments within ANTsR, you might...

Thanks Brian--informative as always. I added [this](https://github.com/ANTsX/ANTs/wiki/antsRegistration-reproducibility-issues) wiki page as an initial attempt for addressing the relevant issues. Let me know if you'd like something different.

@moskvich412 I see that you have read a couple of the comments in this thread, specifically the last comment from @stnava dealing with ``ANTS_RANDOM_SEED`` and ``ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS`` but have you read...

You've probably done all you can to remove ANTs variability.

Can you post the precise set of commands used to produce these results?

@muschellij2 I've noticed this as well as I've navigated ANTsR but wasn't present when the various decisions were made so I'm probably going to be the least helpful person to...

I don't see anything on the pdfs.

The default syn metric is mutual information. For the scheme you're proposing, you'd have to use something like mean squares.