A Microsoft® Visual Basic software, WinClbclas, has been developed to calculate the chemical formulae of columbite-supergroup minerals based on data obtained from wet-chemical and electron-microprobe analyses and using the current nomenclature scheme adopted by the Commission on New Minerals, Nomenclature and Classification (CNMNC) of the International Mineralogical Association (IMA) for columbite-supergroup minerals. The program evaluates 36 IMA-approved species, three questionable in terms of their unit-cell parameters, four insufficiently studied questionable species and one ungrouped species, all according to the dominant valance and constituent status in five mineral groups including ixiolite (MO2), wolframite (M1M2O4), samarskite (ABM2O8), columbite (M1M2O6) and wodginite (M1M2M32O8). Mineral compositions of the columbite supergroup are calculated on the basis of 24 oxygen atoms per formula unit. However, the formulae of the five ixiolite to wodginite groups can be estimated by the program on the basis of their cation and anion values in their typical mineral formulae (e.g. 4 cations and 8 oxygens for the wodginite group) with normalisation procedures. The Fe3+ and Fe2+ contents from microprobe-derived total FeO (wt.%) amounts are estimated by stoichiometric constraints. WinClbclas allows users to: (1) enter up to 47 input variables for mineral compositions; (2) type and load multiple columbite-supergroup mineral compositions in the data entry section; (3) edit and load the Microsoft® Excel files used in calculating, classifying, and naming the columbite-supergroup minerals, together with the total monovalent to hexavalent ion; and (4) store all the calculated parameters in the output of a Microsoft® Excel file for further data evaluation. The program is distributed as a self-extracting setup file, including the necessary support files used by the program, a help file and representative sample data files.

REAP-2 is an interactive dose-response curve estimation tool for Robust and Efficient Assessment of drug Potency. It provides user-friendly dose-response curve estimation for in vitro studies and conducts statistical testing for model comparisons with a redesigned user interface. We also make a major update of the underlying estimation method with penalized beta regression, which demonstrates great reliability and accuracy in dose estimation and uncertainty quantification. In this note, we describe the method and implementation of REAP-2 with a highlight on potency estimation and drug comparison.

An emergent volume electron microscopy technique called cryogenic serial plasma focused ion beam milling scanning electron microscopy (pFIB/SEM) can decipher complex biological structures by building a three-dimensional picture of biological samples at mesoscale resolution. This is achieved by collecting consecutive SEM images after successive rounds of FIB milling that expose a new surface after each milling step. Due to instrumental limitations, some image processing is necessary before 3D visualization and analysis of the data is possible. SEM images are affected by noise, drift, and charging effects, that can make precise 3D reconstruction of biological features difficult. This article presents Okapi-EM, an open-source napari plugin developed to process and analyze cryogenic serial pFIB/SEM images. Okapi-EM enables automated image registration of slices, evaluation of image quality metrics specific to pFIB-SEM imaging, and mitigation of charging artifacts. Implementation of Okapi-EM within the napari framework ensures that the tools are both user- and developer-friendly, through provision of a graphical user interface and access to Python programming.

These days, because of the coronavirus disease (COVID-19) pandemic, we have faced a number of challenges and scarcities in Iran. Lack of personal protective equipment (PPE) is one of the most remarkable problems that can have damaging consequences on the health system. In this letter, we introduce software that can help hospitals manage their PPE in terms of purchasing, distributing, and predicting the future needs in different time intervals. The software has several distinctive features such as superior speed, cost management, managerial dashboard, a wide range of applicability, comprehensiveness, supply chain management, and quality appraisal. We hope that our findings can assist health authorities in planning and optimizing the use of PPE for the response to COVID-19, where the shortage of resources may occur due to supply chain issues.

This article introduces a training simulator for electron beam alignment using Ronchigrams. The interactive web application, www.ronchigram.com, is an advanced educational tool aimed at making scanning transmission electron microscopy (STEM) more accessible and open. For experienced microscopists, the tool offers on-hand quantification of simulated Ronchigrams and their resolution limits.

NeXL is a collection of Julia language packages (libraries) for X-ray microanalysis data processing. NeXLCore provides basic atomic and X-ray physics data and models including support for microanalysis-related data types for materials and k-ratios. NeXLMatrixCorrection provides algorithms for matrix correction and iteration. NeXLSpectrum provides utilities and tools for energy-dispersive X-ray spectrum and hyperspectrum analysis including display, manipulation, and fitting. NeXL is integrated with the Julia language infrastructure. NeXL builds on the Gadfly plotting library and the DataFrames tabular data library. When combined with the DrWatson package, NeXL can provide a highly reproducible environment in which to process microanalysis data. Data availability and reproducible data analysis are two keys to scientific reproducibility. Not only should readers of journal articles have access to the data, they should also be able to reproduce the analysis steps that take the data to final results. This paper will both discuss the NeXL framework and provide examples of how it can used for reproducible data analysis.