[Homer-users] Preprocessing starting with Oxygenation

[Adam Noah]

You should talk to Shimadzu about the export function. This is quite
standard and the ability to export to OD is actually right in the GUI, raw
data export is in a matlab script that Shimadzu provides, but in looking at
the code it is straightforward.  On the other hand, as you mention the
conversion to oxyHB is just a linear transform, and thus I also question
the need to work with raw data.  We currently use a LABNIRS as well and
employ the preprocessing pipeline from NIRS-SPM.

Adam

On Mon, Mar 27, 2017 at 5:08 PM, Alexandra Boldin <aboldin at princeton.edu>
wrote:

> Hi all,
>
> We’ve been analyzing some data from a Shimadzu LABNIRS machine and are in
> the process of deciding on the best preprocessing pipeline. We’ve used
> HomER in the past (with data from Hitachi systems) and would love to
> continue using a similar pipeline. However, we only get oxygenation data
> from our system and Homer uses raw absorption data. We're able to modify
> the functions that we need to work with our data, but we were wondering if
> there's any reason not to do the filtering and other processing on data
> after it's converted to oxygenation? Is there a benefit to doing
> preprocessing on raw optical density data or should the results be the same
> if we start with oxygenation instead?
>
> Thanks for your help!
>
> - Alex
>
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