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We present Spectral GUI, a multiplatform breast MR image analysis tool designed to facilitate the segmentation of fibro glandular tissues and lesions in T1 weighted breast MR images via a graphical user interface (GUI). Spectral GUIR uses…
The prediction interval is gaining prominence in meta-analysis as it enables the assessment of uncertainties in treatment effects and heterogeneity between studies. However, coverage probabilities of the current standard method for…
Multimodal medical information processing is currently the epicenter of intense interdisciplinary research, as proper data fusion may lead to more accurate diagnoses. Moreover, multimodality may disambiguate cases of co-morbidity. This…
This paper gives a review and synthesis of methods of evaluating dimensionality reduction techniques. Particular attention is paid to rank-order neighborhood evaluation metrics. A framework is created for exploring dimensionality reduction…
White matter tract integrity (WMTI) can characterize brain microstructure in areas with highly aligned fiber bundles. Several WMTI biomarkers have now been validated against microscopy and provided promising results in studies of brain…
Increased application of multivariate data in many scientific areas has considerably raised the complexity of analysis and interpretation. Although quite a few approaches have been put forward to address this issue, there is still a gap…
For scientific knowledge to be findable, accessible, interoperable, and reusable, it needs to be machine-readable. Moving forward from post-publication extraction of knowledge, we adopted a pre-publication approach to write research…
An easy way to define and visualize geometry for PHITS input files introduced. Suggested FitsGeo Python package helps to define surfaces as Python objects and manipulate them conveniently. VPython assists to view defined geometry…
The increasing complexity and volume of data generated by high-throughput computational materials science require robust tools to ensure their accessibility, reproducibility, and reuse. In particular, integrating the FAIR Guiding Principles…
ShinyItemAnalysis (SIA) is an R package and shiny application for an interactive presentation of psychometric methods and analysis of multi-item measurements in psychology, education, and social sciences in general. In this article, we…
Current connectivity diagrams of human brain image data are either overly complex or overly simplistic. In this work we introduce simple yet accurate interactive visual representations of multiple brain image structures and the connectivity…
The concept of "tidy data" offers a powerful framework for structuring data to ease manipulation, modeling and visualization. However, most R functions, both those built-in and those found in third-party packages, produce output that is not…
With the emergence of a new pandemic worldwide, a novel strategy to approach it has emerged. Several initiatives under the umbrella of "open science" are contributing to tackle this unprecedented situation. In particular, the "R Language…
Background and objective: Cell migration is essential for many biological phenomena with direct impact on human health and disease. One conventional approach to study cell migration involves the quantitative analysis of individual cell…
Computational methods are driving high impact microscopy techniques such as ptychography. However, the design and implementation of new algorithms is often a laborious process, as many parts of the code are written in close-to-the-hardware…
Summary: MALDIquant is an R package providing a complete and modular analysis pipeline for quantitative analysis of mass spectrometry data. MALDIquant is specifically designed with application in clinical diagnostics in mind and implements…
The statistical analysis of structured spatial point process data where the event locations are determined by an underlying spatially embedded relational system has become a vivid field of research. Despite a growing literature on different…
When faced with new data, we often conduct a cluster analysis to obtain a better understanding of the data's structure and the archetypical samples present in the data. This process often includes visualization of the data, either as a way…
When performing an aggregate data meta-analysis of a continuous outcome, researchers often come across primary studies that report the sample median of the outcome. However, standard meta-analytic methods typically cannot be directly…
Kernel smoothers are essential tools for data analysis due to their ability to convey complex statistical information with concise graphical visualisations. Their inclusion in the base distribution and in the many user-contributed add-on…