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New tool helps nanorods stand out

Rice University scientists have created an open-source algorithm, SEMseg, that simplifies nanoparticle analysis using scanning electron microscope images. @ Landes Research Group

Rice University scientists have developed an easy and affordable tool to count and characterize nanoparticles.

The Rice labs of chemists Christy Landes and Stephan Link created an open-source program called SEMseg to acquire data about nanoparticles, objects smaller than 100 nanometers, from scanning electron microscope (SEM) images that are otherwise difficult if not impossible to analyze.

The size and shape of the particles influences how well they work in optoelectronic devices, catalysts and sensing applications like surface-enhanced Raman spectroscopy.

SEMseg is described in a study led by Landes and Rice graduate student Rashad Baiyasi in the American Chemical Society's Journal of Physical Chemistry A.

The program is available for download from GitHub at

SEMseg -- for SEM segmentation -- springs from the team's study in Science last year that showed how proteins can be used to push nanorods into chiral assemblies. "This work was one result of that," Landes said. "We realized there was no good way to quantitatively analyze SEM images."

Counting and characterizing individual or aggregate nanorods is usually done with complex and expensive transmission electron microscopes (TEM), manual measurement that is prone to human bias or programs that fail to distinguish between particles unless they're far apart. SEMseg extracts pixel-level data from low-contrast, low-resolution SEM images and recombines it into sharp images.

SEMseg can quickly distinguish individual nanorods in closely packed assemblies and aggregates to determine the size and orientation of each particle and the size of gaps between them. That allows for a more efficient statistical analysis of aggregates.

"In a matter of minutes, SEMseg can characterize nanoparticles in large datasets that would take hours to measure manually," Baiyasi said.

Segmenting nanoparticles, he said, refers to isolating and characterizing each constituent particle in an aggregate. Isolating the constituent nanoparticles lets researchers analyze and characterize the heterogenous structure of aggregates.

Baiyasi said SEMseg can be adapted for such other imaging techniques as atomic force microscopy and could be extended for other nanoparticle shapes, like cubes or triangles

Quantitative analysis of nanorod aggregation and morphology from scanning electron micrographs using SEMseg

Rashad Baiyasi, Miranda J. Gallagher, Lauren A. McCarthy, Emily K. Searles, Qingfeng Zhang, Stephan Link, and Christy F. Landes

Journal of Physical Chemistry A (May 28, 2020)

DOI: 10.1021/acs.jpca.0c03190

Contact information:

Rashad Baiyasi

Graduate Student in Electrical and Computer Engineering

Christy Landes

Professor of Chemistry and Electrical & Computer Engineering

Phone: 713-348-4232

LandesResearch Group

Stephan Link

Professor of Chemistry and Electrical & Computer Engineering

Phone: 713-348-4561

Link Research Group

Rice University

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