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We present the first public release of ShapePipe, an open-source and modular weak-lensing measurement, analysis, and validation pipeline written in Python. We describe the design of the software and justify the choices made. We provide a…
Optical diffraction tomography is an indispensable tool for studying objects in three-dimensions due to its ability to accurately reconstruct scattering objects. Until now this technique has been limited to coherent light because spatial…
Numerical tensor calculus comprise basic tensor operations such as the entrywise addition and contraction of higher-order tensors. We present, TLib, flexible tensor framework with generic tensor functions and tensor classes that assists…
Research in ultrasound imaging is limited in reproducibility by two factors: First, many existing ultrasound pipelines are protected by intellectual property, rendering exchange of code difficult. Second, most pipelines are implemented in…
We present a software package for combining three monochromatic images of an astronomical object into a trichromatic color image. We first discuss the meaning of "true" colors in astronomical images. We then describe the different steps of…
Imaging across both the full transverse spatial and temporal dimensions of a scene with high precision in all three coordinates is key to applications ranging from LIDAR to fluorescence lifetime imaging. However, compromises that sacrifice,…
Current and upcoming generations of visible-shortwave infrared (VSWIR) imaging spectrometers promise unprecedented capacity to quantify Earth System processes across the globe. However, reliable cloud screening remains a fundamental…
Super-resolution microscopy is providing unprecedented insights into biology by resolving details much below the diffraction limit. State-of-the-art Single Molecule Localization Microscopy (SMLM) techniques for super-resolution are…
We present TopoTB, a software package written in the Mathematica language, designed to compute electronic structures, topological properties, and phase diagrams based on tight-binding models. TopoTB is user-friendly, with an interactive…
Real-valued transforms such as the discrete cosine, sine, and Hartley transforms play a central role in classical computing, complementing the Fourier transform in applications from signal and image processing to data compression. However,…
TorchOptics is an open-source Python library for differentiable Fourier optics simulations, developed using PyTorch to enable GPU-accelerated tensor computations and automatic differentiation. It provides a comprehensive framework for…
The field of gamma-ray astronomy has seen important progress during the last decade, yet there exists so far no common software framework for the scientific analysis of gamma-ray telescope data. We propose to fill this gap by means of the…
This paper describes the design and implementation of Stingray, a library in Python built to perform time series analysis and related tasks on astronomical light curves. Its core functionality comprises a range of Fourier analysis…
Machine learning (ML) offers powerful methods for detecting and modeling associations often in data with large feature spaces and complex associations. Many useful tools/packages (e.g. scikit-learn) have been developed to make the various…
Scanning fluorescence correlation spectroscopy (SFCS) with a scan path perpendicular to the membrane plane was introduced to measure diffusion and interactions of fluorescent components in free standing biomembranes. Using a confocal laser…
TraitLab is a software package for simulating, fitting and analysing tree-like binary data under a stochastic Dollo model of evolution. The model also allows for rate heterogeneity through catastrophes, evolutionary events where many traits…
The HORACE suite of programs has been developed to work with large multiple-measurement data sets collected from time-of-flight neutron spectrometers equipped with arrays of position-sensitive detectors. The software allows exploratory…
We present a novel experimental setup in which magnetic and optical tweezers are combined for torque and force transduction onto single filamentous molecules in a transverse configuration to allow simultaneous mechanical measurement and…
Spectral analysis in conjunction with discrete data in one and more dimensions can become a challenging task, because the methods are sometimes difficult to understand. This paper intends to provide an overview about the usage of the…
Time series processing and feature extraction are crucial and time-intensive steps in conventional machine learning pipelines. Existing packages are limited in their applicability, as they cannot cope with irregularly-sampled or…