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In response to a concerning trend of selectively emphasizing metrics in medical image segmentation (MIS) studies, we introduce \texttt{seg-metrics}, an open-source Python package for standardized MIS model evaluation. Unlike existing…

Computer Vision and Pattern Recognition · Computer Science 2024-03-14 Jingnan Jia , Marius Staring , Berend C. Stoel

Youpi stands for "YOUpi is your processing PIpeline". It is a portable, easy to use web application providing high level functionalities to perform data reduction on scientific FITS images. It is built on top of open source processing tools…

Distributed, Parallel, and Cluster Computing · Computer Science 2010-06-08 M. Monnerville , G. Sémah

PySE is a Python software package for finding and measuring sources in radio telescope images. The software was designed to detect sources in the LOFAR telescope images, but can be used with images from other radio telescopes as well. We…

Instrumentation and Methods for Astrophysics · Physics 2018-10-03 D. Carbone , H. Garsden , H. Spreeuw , J. D. Swinbank , A. J. van der Horst , A. Rowlinson , J. W. Broderick , E. Rol , C. Law , G. Molenaar , R. A. M. J. Wijers

Wavelets are widely used in various disciplines to analyse signals both in space and scale. Whilst many fields measure data on manifolds (i.e., the sphere), often data are only observed on a partial region of the manifold. Wavelets are a…

Information Theory · Computer Science 2023-04-24 Patrick J. Roddy

In the era of large time-domain spectro-photometric surveys, surface variations such as starspots, chemical inhomogeneities, pulsations, rotational distortions, and binary interactions can now be directly detected and modelled. Accurately…

Solar and Stellar Astrophysics · Physics 2025-11-17 M. Jabłońska , T. Różański , L. Casagrande , H. Shah , P. A. Kołaczek-Szymański , M. Rychlicki , Yuan-Sen Ting

Spectral data reduction pipelines deal with a wide variety of challenges including masking cosmic rays, calibrating wavelength solutions, and estimating background noise while trying to remain model-agnostic. Traditional methods rely on…

Instrumentation and Methods for Astrophysics · Physics 2025-11-24 Douglas P. Finkbeiner , Joshua S. Speagle , Tanveer Karim

Deep astronomical images are often constructed by digitially stacking many individual sub-exposures. Each sub-exposure is expected to show small differences in the positions of stars and other objects in the field, due to the movement of…

Instrumentation and Methods for Astrophysics · Physics 2025-05-22 Carter Lee Rhea , Pieter Van Dokkum , Steven R. Janssens , Imad Pasha , Roberto Abraham , William P Bowman , Deborah Lokhorst , Seery Chen

metric-learn is an open source Python package implementing supervised and weakly-supervised distance metric learning algorithms. As part of scikit-learn-contrib, it provides a unified interface compatible with scikit-learn which allows to…

Machine Learning · Computer Science 2020-07-28 William de Vazelhes , CJ Carey , Yuan Tang , Nathalie Vauquier , Aurélien Bellet

PyPWA is a toolkit designed to optimize parametric models describing data and generate simulated distributions according to a model. Its software has been written within the python ecosystem with the goal of performing Amplitude or Partial…

Data Analysis, Statistics and Probability · Physics 2023-06-06 Mark Jones , Peter Hurck , William Phelps , Carlos W. Salgado

We developed a high-speed image reduction pipeline using Graphics Processing Units (GPUs) as hardware accelerators. Astronomers desire detecting EM counterpart of gravitational-wave sources as soon as possible for sharing positional…

Instrumentation and Methods for Astrophysics · Physics 2020-10-14 Masafumi Niwano , Katsuhiro L. Murata , Ryo Adachi , Sili Wang , Yutaro Tachibana , Youichi Yatsu , Nobuyuki Kawai , Takashi Shimokawabe , Ryousuke Itoh

The last 15 years have seen a surge of new multi-chip optical and near-IR imagers. While some of them are accompanied by specific reduction pipelines, user-friendly and generic reduction tools are uncommon. In this paper I introduce THELI,…

Instrumentation and Methods for Astrophysics · Physics 2013-11-11 Mischa Schirmer

We have written an automatic image processing pipeline for the Advanced Camera for Surveys (ACS) Guaranteed Time Observation (GTO) program. The pipeline, known as Apsis, supports the different cameras available on the ACS instrument and is…

Astrophysics · Physics 2007-05-23 J. P. Blakeslee , K. R. Anderson , G. R. Meurer , N. Benitez , D. Magee

PyCPL provides full access to ESO's Common Pipeline Library ( CPL) for astronomical data reduction within a Python environment. Not only does it offer a Python interface to the robust CPL library, but it also lets users and developers fully…

Instrumentation and Methods for Astrophysics · Physics 2024-04-03 Mrunmayi S. Deshpande , Nuria P. F. Lorente , Anthony Horton , Brent Miszalski , Ralf Palsa , Lars Lundin , Anthony Heng , Aidan Farrell

The Apache Point Observatory Galactic Evolution Experiment (APOGEE), part of the Sloan Digital Sky Survey III, explores the stellar populations of the Milky Way using the Sloan 2.5-m telescope linked to a high resolution (R~22,500),…

We present here the first release of the open-source python package ExoTETHyS, which aims to provide a stand-alone set of tools for modeling spectro-photometric observations of the transiting exoplanets. In particular, we describe: (1) a…

Earth and Planetary Astrophysics · Physics 2020-02-05 Giuseppe Morello , Antonio Claret , Marine Martin-Lagarde , Christophe Cossou , Angelos Tsiaras , Pierre-Olivier Lagage

PyPOTS is an open-source Python library dedicated to data mining and analysis on multivariate partially-observed time series with missing values. Particularly, it provides easy access to diverse algorithms categorized into five tasks:…

Machine Learning · Computer Science 2025-07-10 Wenjie Du , Yiyuan Yang , Linglong Qian , Jun Wang , Qingsong Wen

GePEToS is a simulation framework developed over the last few years for assessing the instrumental performance of future PET scanners. It is based on Geant4, written in Object-Oriented C++ and runs on Linux platforms. The validity of…

Medical Physics · Physics 2015-06-26 S. Jan , J. Collot , M. -L. Gallin-Martel , P. Martin , F. Mayet , E. Tournefier

We present Paicos, a new object-oriented Python package for analyzing simulations performed with Arepo. Paicos strives to reduce the learning curve for students and researchers getting started with Arepo simulations. As such, Paicos…

Instrumentation and Methods for Astrophysics · Physics 2024-04-24 Thomas Berlok , Léna Jlassi , Ewald Puchwein , Troels Haugbølle

This manuscript describes the design, usage, and data-reduction pipeline developed for the Magellan Inamori Kyocera Echelle (MIKE) spectrometer used with the Magellan telescope at the Las Campanas Observatory. We summarize the basic…

Instrumentation and Methods for Astrophysics · Physics 2015-10-14 Rebecca A. Bernstein , Scott M. Burles , J. Xavier Prochaska