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In order to define a multi-component source model expression in Sherpa containing both convolved and unconvolved components with which to fit a single data set, the model must be manually defined using the set_full_model function (as opposed to the set_source function, which automatically convolves an entire source model expression with a PSF or response model).
Regions of interest (ROIs) were manually defined using the Open Source software 3D Slicer image analysis software (Version 3.6.3 www.slicer.org) for each rat on the region of increased signal in the ipsilateral hemisphere.
Cell clusters were manually defined using phase images and the irregular AOI tool and the resultant groups were segmented based on an empirically determined positive staining threshold.
Seventeen pairs of large contiguous homeologous regions were manually defined using a rice rice syntenic dotplot.
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These, plus six additional paralogous loci, were manually curated and defined using up- and down-stream sequence in order to enable the BIGSdb scanning function to correctly distinguish the divergent regions of the paralogous genes without manual curation.
Singletons and the core genes, initially defined using the EDGAR tool, were manually verified with BLASTn.
Analysis regions were defined using the templatized VOI database and were then manually edited using the fused CT and OSEM PET images as a guide.
MS parameters were automatically defined using Waters IntelliStart software for the tuning and calibration of the TQD and subsequently manually optimized for all analytes.
The points at which the 6 rays touched the profile of the neuron were manually defined and used for volumetric estimates.
ICC, slope of Deming regression line, mean difference and limits of agreement for MBF and CFR calculated using each segmentation algorithm and those using manually defined CA t) and CRV t) are listed in Table 1, showing high ICC for most methods (ICC > 0.9).
Segmental MBF obtained using these input functions was compared with MBF obtained using manually defined input functions.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com