Extracting bar code label and overview image from MRXS slide

[Sharma, Ashish]

Benjamin,

Is there a way to strip a WSI file of these associated images? We have some that have some private information on the labels and we’d like the label to be blank.

Thanks
————————————————————————————————————
Ashish Sharma, PhD
Assistant Professor, Department of Biomedical Informatics
Adjunct Assistant Professor, Mathematics and Computer Science
Senior Systems Architect, Center for Comprehensive Informatics
Emory University

36 Eagle Row, #573
Atlanta, GA 30322

Ph: (404) 654-0124
ashish.sharma at emory.edu<mailto:ashish.sharma at emory.edu>

On Jul 30, 2014, at 1:30 PM, Benjamin Gilbert <bgilbert at cs.cmu.edu<mailto:bgilbert at cs.cmu.edu>> wrote:

On 07/30/2014 10:17 AM, Tom N. wrote:
3DHistech scanners take grey scale image of the bar code label on the
slide as well as of the glass slide. These images are embedded in the
MRXS file. How would one go about extracting those images from the file
using preferable VIPS or if not possible, using an available OpenSlide
tool or API ?

Hi Tom,

OpenSlide calls these "associated images".  For examples of extracting
associated images with VIPS, see the OpenSlide wiki:

    https://github.com/openslide/openslide/wiki/OpenSlideAndVIPS

--Benjamin Gilbert

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