A Python script to automate STM image analysis for stepped surfaces

Bastidas, Jessika M. Piñeiros; Auras, Sabine V.; Juurlink, Ludo B. F.

doi:10.1016/j.apsusc.2021.150821

Cited by 3 publications

(5 citation statements)

References 31 publications

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“…Instead, the distribution of the terrace widths is very broad. The step distribution that was obtained by evaluating STM images with an Python script reported by Bastidas et al [ 32 ] is shown in Figure S1b in Supporting Information File 1 . On the left-hand side of the STM image (Figure S1, Supporting Information File 1 ), the average distance between the steps is only 20 Å (seven atom rows), which is less than half of the expected terrace width of 50.5 Å.…”

Section: Resultsmentioning

confidence: 99%

Directed growth of quinacridone chains on the vicinal Ag(35 1 1) surface

Humberg,

Grönwoldt,

Sokolowski

2024

Beilstein J. Nanotechnol.

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The formation of self-assembled domains and chains of monomolecular width of quinacridone (QA) on the vicinal Ag(35 1 1) surface was investigated by scanning tunneling microscopy and low-energy electron diffraction. The focus was on the influence of the steps on the QA structures and their preferential azimuthal orientations with the aim of achieving a selective orientation. After deposition at a sample temperature of 300 K, QA forms the same kind of molecular chains as on the nominally flat Ag(100) surface because of strong intermolecular hydrogen bonds, which we reported in a previous publication [Humberg, N.; Bretel, R.; Eslam, A.; Le Moal, E.; Sokolowski, M. J. Phys. Chem. C 2020, 124, 24861–24873]. The vicinal surface leads to one additional chain orientation, which is parallel to the Ag step edges. However, most chains nucleate on the Ag terraces between steps with four distinct azimuthal orientations that are identical to those on Ag(100), and which are determined by the interactions with the (100) surface. At 300 K, the chains grow across the Ag steps, which do not break the azimuthal chain orientations. In contrast, during the deposition at sample temperatures of 400 and 500 K, the nucleation of the chains takes place at the Ag step edges. Hence, these have a strong influence on the azimuthal orientation of the molecules, resulting in a preferential growth of the chains in two of the four azimuthal orientations. We explain this by the adaptation of favorable adsorption sites, which involve the replacement of Ag atoms by QA molecules with specific azimuthal orientations at the step edges.

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Section: Resultsmentioning

confidence: 99%

Directed growth of quinacridone chains on the vicinal Ag(35 1 1) surface

Humberg,

Grönwoldt,

Sokolowski

2024

Beilstein J. Nanotechnol.

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“…We also analyze step edge meandering at the atomic scale. For this, we generate 'grid-fitted' meandering of step edges by comparing the coordinates of a step with the coordinates of the atomic grid defined for the crystal as previously described in [13]. We initially only include images with the highest resolution, i.e., images with a maximum size of 50 𝑥 50 nm 2 .…”

Section: Resultsmentioning

confidence: 99%

“…⟩. Values of ⟨𝑘 2 ⟩ can easily be extracted from the distribution of kinks along steps by our Python script [13].…”

Section: Resultsmentioning

confidence: 99%

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A study of step defects on NiAl(110) using a curved single crystal surface

2023

Self Cite

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“…Image and signal processing by its object-oriented algorithms of Python are pervasive in geosciences and provide solutions to a wide range of problems. Examples of using Python have been reported in a variety of domains, including geodetic studies [62], topographic analysis [63], hydrogeological modelling [64], modelling air pollution and land use [65], batch spatial data processing [66], creating panorama images [67] and tunneling microscopy [68], to mention a few. R is a fundamental programming tool for statistical and spatial data processing [69].…”

Section: Related Workmentioning

confidence: 99%

Satellite Image Processing by Python and R Using Landsat 9 OLI/TIRS and SRTM DEM Data on Côte d’Ivoire, West Africa

Lemenkova

Debeir

2022

J. Imaging

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In this paper, we propose an advanced scripting approach using Python and R for satellite image processing and modelling terrain in Côte d’Ivoire, West Africa. Data include Landsat 9 OLI/TIRS C2 L1 and the SRTM digital elevation model (DEM). The EarthPy library of Python and `raster’ and `terra’ packages of R are used as tools for data processing. The methodology includes computing vegetation indices to derive information on vegetation coverage and terrain modelling. Four vegetation indices were computed and visualised using R: the Normalized Difference Vegetation Index (NDVI), Enhanced Vegetation Index 2 (EVI2), Soil-Adjusted Vegetation Index (SAVI) and Atmospherically Resistant Vegetation Index 2 (ARVI2). The SAVI index is demonstrated to be more suitable and better adjusted to the vegetation analysis, which is beneficial for agricultural monitoring in Côte d’Ivoire. The terrain analysis is performed using Python and includes slope, aspect, hillshade and relief modelling with changed parameters for the sun azimuth and angle. The vegetation pattern in Côte d’Ivoire is heterogeneous, which reflects the complexity of the terrain structure. Therefore, the terrain and vegetation data modelling is aimed at the analysis of the relationship between the regional topography and environmental setting in the study area. The upscaled mapping is performed as regional environmental analysis of the Yamoussoukro surroundings and local topographic modelling of the Kossou Lake. The algorithms of the data processing include image resampling, band composition, statistical analysis and map algebra used for calculation of the vegetation indices in Côte d’Ivoire. This study demonstrates the effective application of the advanced programming algorithms in Python and R for satellite image processing.

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A Python script to automate STM image analysis for stepped surfaces

Cited by 3 publications

References 31 publications

Directed growth of quinacridone chains on the vicinal Ag(35 1 1) surface

Directed growth of quinacridone chains on the vicinal Ag(35 1 1) surface

A study of step defects on NiAl(110) using a curved single crystal surface

Satellite Image Processing by Python and R Using Landsat 9 OLI/TIRS and SRTM DEM Data on Côte d’Ivoire, West Africa

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