It's Time for Color Vision Deficiency Friendly Color Maps in the Radar Community

Color Vision Deficiency (CVD) is a decreased ability to discern between particular colors. 8% of men and 0.4% of women have some form of CVD. An informal poll of AGU and AMS twitter followers yielded 10% of 70 respondents self identifying as having CVD. When presenting data on a two-dimensional plane it is common to use colors to represent values, the mapping between values and colors is known as a colormap. Colormap choice is personal and is influenced by: (1) Ability to highlight scientifically interesting data. (2) Institutional choices (supervisor insists on a certain colormap). (3) Domain dominance of a particular colormap (common in the radar community). Colormap choice should be influenced by: (1) Ability to highlight scientifically interesting data. (2) Perceptual uniformity (thus not creating artificial structure). (3) Approachability by those with visual impairments (CVD). (4) Ideally, but not always achievable, reproducibility in greyscale

Enhanced light extraction from InGaN/GaN quantum wells with silver gratings

We demonstrate that an extraction enhancement by a factor of 2.8 can be obtained for a GaN quantum well structure using metallic nanostructures, compared to a flat semiconductor. The InGaN/GaN quantum well is inserted into a dielectric waveguide, naturally formed in the structure, and a silver grating is deposited on the surface and covered with a polymer film. The polymer layer greatly improves the extraction compared to a single metallic grating. The comparison of the experiments with simulations gives strong indications on the key role of weakly guided modes in the polymer layer diffracted by the grating.Peer reviewe

Automated quantification of steatosis: agreement with stereological point counting

Background: Steatosis is routinely assessed histologically in clinical practice and research. Automated image analysis can reduce the effort of quantifying steatosis. Since reproducibility is essential for practical use, we have evaluated different analysis methods in terms of their agreement with stereological point counting (SPC) performed by a hepatologist. Methods: The evaluation was based on a large and representative data set of 970 histological images from human patients with different liver diseases. Three of the evaluated methods were built on previously published approaches. One method incorporated a new approach to improve the robustness to image variability. Results: The new method showed the strongest agreement with the expert. At 20× resolution, it reproduced steatosis area fractions with a mean absolute error of 0.011 for absent or mild steatosis and 0.036 for moderate or severe steatosis. At 10× resolution, it was more accurate than and twice as fast as all other methods at 20× resolution. When compared with SPC performed by two additional human observers, its error was substantially lower than one and only slightly above the other observer. Conclusions: The results suggest that the new method can be a suitable automated replacement for SPC. Before further improvements can be verified, it is necessary to thoroughly assess the variability of SPC between human observers

A Case Study of Convectively Sourced Water Vapor Observed in the Overworld Stratosphere over the United States

On 27 August 2013, during the Studies of Emissions and Atmospheric Composition, Clouds and Climate Coupling by Regional Surveys field mission, NASA's ER2 research aircraft encountered a region of enhanced water vapor, extending over a depth of approximately 2 km and a minimum areal extent of 20,000 km(exp 2) in the stratosphere (375 K to 415 K potential temperature), south of the Great Lakes (42N, 90W). Water vapor mixing ratios in this plume, measured by the Harvard Water Vapor instrument, constitute the highest values recorded in situ at these potential temperatures and latitudes. An analysis of geostationary satellite imagery in combination with trajectory calculations links this water vapor enhancement to its source, a deep tropopausepenetrating convective storm system that developed over Minnesota 20 h prior to the aircraft plume encounter. High resolution, groundbased radar data reveal that this system was composed of multiple individual storms, each with convective turrets that extended to a maximum of ~4 km above the tropopause level for several hours. In situ water vapor data show that this storm system irreversibly delivered between 6.6 kt and 13.5 kt of water to the stratosphere. This constitutes a 2025% increase in water vapor abundance in a column extending from 115 hP to 70 hPa over the plume area. Both in situ and satellite climatologies show a high frequency of localized water vapor enhancements over the central U.S. in summer, suggesting that deep convection can contribute to the stratospheric water budget over this region and season

A fast and robust hepatocyte quantification algorithm including vein processing

<p>Abstract</p> <p>Background</p> <p>Quantification of different types of cells is often needed for analysis of histological images. In our project, we compute the relative number of proliferating hepatocytes for the evaluation of the regeneration process after partial hepatectomy in normal rat livers.</p> <p>Results</p> <p>Our presented automatic approach for hepatocyte (HC) quantification is suitable for the analysis of an entire digitized histological section given in form of a series of images. It is the main part of an automatic hepatocyte quantification tool that allows for the computation of the ratio between the number of proliferating HC-nuclei and the total number of all HC-nuclei for a series of images in one processing run. The processing pipeline allows us to obtain desired and valuable results for a wide range of images with different properties without additional parameter adjustment. Comparing the obtained segmentation results with a manually retrieved segmentation mask which is considered to be the ground truth, we achieve results with sensitivity above 90% and false positive fraction below 15%.</p> <p>Conclusions</p> <p>The proposed automatic procedure gives results with high sensitivity and low false positive fraction and can be applied to process entire stained sections.</p

Vertical Transport, Entrainment, and Scavenging Processes Affecting Trace Gases in a Modeled and Observed SEAC⁴RS Case Study

The convectively driven transport of soluble trace gases from the lower to the upper troposphere can occur on timescales of less than an hour, and recent studies suggest that microphysical scavenging is the dominant removal process of tropospheric ozone precursors. We examine the processes responsible for vertical transport, entrainment, and scavenging of soluble ozone precursors (formaldehyde and peroxides) for midlatitude convective storms sampled on 2 September 2013 during the Studies of Emissions, Atmospheric Composition, Clouds and Climate Coupling by Regional Surveys (SEAC⁴RS) study. Cloud‐resolving simulations using the Weather Research and Forecasting with Chemistry model combined with aircraft measurements were performed to understand the effect of entrainment, scavenging efficiency (SE), and ice physics processes on these trace gases. Analysis of the observations revealed that the SEs of formaldehyde (43–53%) and hydrogen peroxide (~80–90%) were consistent between SEAC⁴RS storms and the severe convection observed during the Deep Convective Clouds and Chemistry Experiment (DC3) campaign. However, methyl hydrogen peroxide SE was generally smaller in the SEAC⁴RS storms (4%–27%) compared to DC3 convection. Predicted ice retention factors exhibit different values for some species compared to DC3, and we attribute these differences to variations in net precipitation production. The analyses show that much larger production of precipitation between condensation and freezing levels for DC3 severe convection compared to smaller SEAC⁴RS storms is largely responsible for the lower amount of soluble gases transported to colder temperatures, reducing the amount of soluble gases which eventually interact with cloud ice particles

Summary and Highlights of the SPARC-Reanalysis Intercomparison Project

The climate research community uses global atmospheric reanalysis data sets to understand a wide range of processes and variability in the atmosphere; they are a particularly powerful tool for studying phenomena that cannot be directly observed. Different reanalyses may give very different results for the same diagnostics. The Stratosphere troposphere Processes And their Role in Climate (SPARC) Reanalysis Intercomparison Project (S-RIP) is a coordinated activity to compare key diagnostics that are important for stratospheric processes and their tropospheric connections among available reanalyses. S-RIP has been identifying differences among reanalyses and their underlying causes, providing guidance on appropriate usage of reanalysis products in scientific studies (particularly those of relevance to SPARC), and contributing to future improvements in the reanalysis products by establishing collaborative links between reanalysis centres and data users. S-RIP emphasizes diagnostics of the upper troposphere, stratosphere, and lower mesosphere. The draft S-RIP final report is expected to be completed in 2018. This poster gives a summary of the S-RIP project and presents highlights including results on the Brewer-Dobson circulation, stratosphere/troposphere dynamical coupling, the extra-tropical upper troposphere / lower stratosphere, the tropical tropopause layer, the quasi-biennial oscillation, lower stratospheric polar processing, and the upper stratosphere/lower mesosphere