MRI Scan of Sweet Cherry (Prunus avium L.)

The Scan
At bloom (late April) in 2016, the top of an 8-year-old sweet cherry tree, cultivar 'NY 119', planted at Michigan State University's Clarksville Research Center and trained to a standard central leader canopy architecture, was removed with a chain saw 1.5 m from the ground. All lateral branches below that point were removed to promote the sprouting of epicormic buds along the remaining trunk length. Prior to and following this topping, the tree was managed with standard fertility, irrigation, and pest management procedures with the rest of the ~ 0.25 ha experimental orchard. In August, a 1.14 m-long section of trunk was fully removed just above the graft union and dried at room temperature in the laboratory. In December, this trunk section was scanned at slice thickness set of 0.625 mm, at Michigan State University’s Department of Radiology (East Lansing, MI) using a whole body magnetic resonance scanner (GE Signa HDX 3.0T, Chicago, IL). The scan took slightly over a minute and produced 1871 images, each of which is 250x250 pixels. Contrast in the scanned image is created by differences in moisture content; contrast is greater in air-dried than fresh wood.

Files Included
This dataset includes the original dicom (dcm) files generated by the MRI machine (cherry_trunk_dcm.zip) and numpy files created using the pydicom module (cherry_trunk_npy.zip).