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PHOTONAI—A Python API for rapid machine learning model development by Leenings, Ramona, Winter, Nils Ralf, Plagwitz, Lucas, Holstein, Vincent, Ernsting, Jan, Sarink, Kelvin, Fisch, Lukas, Steenweg, Jakob, Kleine-Vennekate, Leon, Gebker, Julian, Emden, Daniel, Grotegerd, Dominik, Opel, Nils, Risse, Benjamin, Jiang, Xiaoyi, Dannlowski, Udo, Hahn, Tim

“…PHOTONAI is a high-level Python API designed to simplify and accelerate machine learning model development…”
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NeuroKit2: A Python toolbox for neurophysiological signal processing by Makowski, Dominique, Pham, Tam, Lau, Zen J., Brammer, Jan C., Lespinasse, François, Pham, Hung, Schölzel, Christopher, Chen, S. H. Annabel

“…NeuroKit2 is an open-source, community-driven, and user-centered Python package for neurophysiological signal processing…”
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Innovative UAV LiDAR Generated Point-Cloud Processing Algorithm in Python for Unsupervised Detection and Analysis of Agricultural Field-Plots by Polák, Michal, Miřijovský, Jakub, Hernándiz, Alba E., Špíšek, Zdeněk, Koprna, Radoslav, Humplík, Jan F.

“…The estimation of plant growth is a challenging but key issue that may help us to understand crop vs. environment interactions. To perform precise and…”
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Lingual-Fusion Adapter-Based Transfer Learning for Low-Resource Code Vulnerability Detection by Long, Xinyue, Guo, Shikai, Chai, Yu, Li, Hui, Jan, Sumaira Ameer, Ma, Qian, Ning, Qiao

“… points.For instance, in a scenario where a software system integrates legacy code in a low-resource programming language like PHP, detecting vulnerabilities becomes challenging due to data scarcity…”
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Pyisotopomer: A Python package for obtaining intramolecular isotope ratio differences from mass spectrometric analysis of nitrous oxide isotopocules by Kelly, Colette L., Manning, Cara, Frey, Claudia, Kaiser, Jan, Gluschankoff, Noah, Casciotti, Karen L.

“… The data analysis requires correcting for “scrambling” in the ion source, whereby the NO+ fragment ion obtains the outer N atom from the N2O molecule…”
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pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment by Warris, Sven, Timal, N. Roshan N., Kempenaar, Marcel, Poortinga, Arne M., van de Geest, Henri, Varbanescu, Ana L., Nap, Jan-Peter

“… commonly used in bioinformatics, such as Python. The novel application pyPaSWAS presents the parallel SW sequence alignment code fully packed in Python…”
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Flow-Py v1.0: a customizable, open-source simulation tool to estimate runout and intensity of gravitational mass flows by D'Amboise, Christopher J L, Neuhauser, Michael, Teich, Michaela, Huber, Andreas, Kofler, Andreas, Perzl, Frank, Fromm, Reinhard, Kleemayr, Karl, Jan-Thomas, Fischer

“…Models and simulation tools for gravitational mass flows (GMFs) such as snow avalanches, rockfall, landslides, and debris flows are important for research,…”
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VISION - an open-source software for automated multi-dimensional image analysis of cellular biophysics by Weber, Florian, Iskrak, Sofiia, Ragaller, Franziska, Schlegel, Jan, Plochberger, Birgit, Sezgin, Erdinc, Andronico, Luca A

“… However, the few open-source packages available for processing of spectral images are limited in scope…”
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Solar-MACH: An open-source tool to analyze solar magnetic connection configurations by Gieseler, Jan, Dresing, Nina, Palmroos, Christian, Freiherr von Forstner, Johan L., Price, Daniel J., Vainio, Rami, Kouloumvakos, Athanasios, Rodríguez-García, Laura, Trotta, Domenico, Génot, Vincent, Masson, Arnaud, Roth, Markus, Veronig, Astrid

“…The Solar MAgnetic Connection HAUS 1 tool (Solar-MACH) is an open-source tool completely written in Python that derives and visualizes the spatial configuration and solar magnetic connection of different observers (i.e…”
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Analysis of Functional Connectivity and Oscillatory Power Using DICS: From Raw MEG Data to Group-Level Statistics in Python by van Vliet, Marijn, Liljeström, Mia, Aro, Susanna, Salmelin, Riitta, Kujala, Jan

“… In this paper, we describe a full data analysis pipeline for functional connectivity analysis based on dynamic imaging of coherent sources (DICS) of MEG data…”
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HermesPy: An Open-Source Link-Level Evaluator for 6G by Adler, Jan, Kronauer, Tobias, Barreto, Andre Noll

“…In this paper we present the Heterogeneous Radio Mobile Simulator in Python (HermesPy), an open-source evaluator for studies on the physical layer of 6-th generation…”
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Solar energetic particle time series analysis with Python by Palmroos, Christian, Gieseler, Jan, Dresing, Nina, Morosan, Diana E., Asvestari, Eleanna, Yli-Laurila, Aleksi, Price, Daniel J., Valkila, Saku, Vainio, Rami

“… and processing tools are needed. This manuscript introduces a series of Python functions that will enable the scientific community to download, load, and visualize…”
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teemi: An open-source literate programming approach for iterative design-build-test-learn cycles in bioengineering by Petersen, Søren D., Levassor, Lucas, Pedersen, Christine M., Madsen, Jan, Hansen, Lea G., Zhang, Jie, Haidar, Ahmad K., Frandsen, Rasmus J. N., Keasling, Jay D., Weber, Tilmann, Sonnenschein, Nikolaus, K. Jensen, Michael

“…Synthetic biology dictates the data-driven engineering of biocatalysis, cellular functions, and organism behavior. Integral to synthetic biology is the…”
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PyThea: An open-source software package to perform 3D reconstruction of coronal mass ejections and shock waves by Kouloumvakos, Athanasios, Rodríguez-García, Laura, Gieseler, Jan, Price, Daniel J., Vourlidas, Angelos, Vainio, Rami

“…PyThea is a newly developed open-source Python software package that provides tools to reconstruct coronal mass ejections (CMEs…”
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Tasho: A Python Toolbox for Rapid Prototyping and Deployment of Optimal Control Problem-Based Complex Robot Motion Skills by Sathya, Ajay Suresha, Astudillo, Alejandro, Gillis, Joris, Decre, Wilm, Pipeleers, Goele, Swevers, Jan

“…We present Tasho (Task specification for receding horizon control), an open-source Python toolbox that facilitates systematic programming of optimal control problem (OCP…”
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Solar Energetic Particle Time Series Analysis with Python by Palmroos, Christian, Gieseler, Jan, Dresing, Nina, Morosan, Diana E, Asvestari, Eleanna, Yli-Laurila, Aleksi, Price, Daniel J, Valkila, Saku, Vainio, Rami

“… and processing tools are needed. This manuscript introduces a series of Python functions that will enable the scientific community to download, load, and visualize…”
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Open-source skull reconstruction with MONAI by Li, Jianning, Ferreira, André, Puladi, Behrus, Alves, Victor, Kamp, Michael, Kim, Moon, Nensa, Felix, Kleesiek, Jens, Ahmadi, Seyed-Ahmad, Egger, Jan

“… The primary goal of this paper lies in the investigation of open-sourcing codes and pre-trained deep learning models under the MONAI framework…”
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OpenML-Python: an extensible Python API for OpenML by Feurer, Matthias, van Rijn, Jan N, Kadra, Arlind, Gijsbers, Pieter, Mallik, Neeratyoy, Sahithya Ravi, Müller, Andreas, Vanschoren, Joaquin, Hutter, Frank

“… Source code and documentation is available at https://github.com/openml/openml-python/…”
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TopoX: A Suite of Python Packages for Machine Learning on Topological Domains by Hajij, Mustafa, Papillon, Mathilde, Frantzen, Florian, Agerberg, Jens, AlJabea, Ibrahem, Ballester, Rubén, Battiloro, Claudio, Bernárdez, Guillermo, Birdal, Tolga, Brent, Aiden, Chin, Peter, Escalera, Sergio, Fiorellino, Simone, Odin Hoff Gardaa, Gopalakrishnan, Gurusankar, Govil, Devendra, Hoppe, Josef, Maneel Reddy Karri, Khouja, Jude, Lecha, Manuel, Livesay, Neal, Meißner, Jan, Mukherjee, Soham, Nikitin, Alexander, Papamarkou, Theodore, Prílepok, Jaro, Karthikeyan Natesan Ramamurthy, Rosen, Paul, Guzmán-Sáenz, Aldo, Salatiello, Alessandro, Samaga, Shreyas N, Scardapane, Simone, Schaub, Michael T, Scofano, Luca, Spinelli, Indro, Telyatnikov, Lev, Truong, Quang, Walters, Robin, Yang, Maosheng, Zaghen, Olga, Zamzmi, Ghada, Zia, Ali, Miolane, Nina

“… The extensively documented and unit-tested source code of TopoX is available under MIT license at https…”
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ILLOD Replication Package: An Open-Source Framework for Abbreviation-Expansion Pair Detection and Term Consolidation in Requirements by Hasso, Hussein, Grosser, Katharina, Aymaz, Iliass, Geppert, Hanna, Jurjens, Jan

“… The artifact bundles all source code and data resources to replicate evaluation results presented for ILLOD in two research papers published at the REFSQ2022 Conference and in the Information and Software Technology (IST) journal…”
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