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GPT-4.1 Sets the Standard in Automated Experiment Design Using Novel Python Libraries by Fachada, Nuno, Fernandes, Daniel, Fernandes, Carlos M., Ferreira-Saraiva, Bruno D., Matos-Carvalho, João P.

“… unfamiliar Python APIs for complex computational experiments remains poorly characterized. This study systematically benchmarks a selection of state-of-the-art LLMs in generating functional Python code for two increasingly challenging scenarios…”
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Accelerating systematic reviews: a novel 1-wk screening protocol using rule-based automation with AI-assisted Python coding by Robleto, Emely, Shehadeh, Lina A

“… (AI) assists with code generation. Researchers define screening criteria, then use AI language models (Claude…”
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The "Question Neighbourhood" Approach for Systematic Evaluation of Code-Generating LLMs by Honarvar, Shahin, Rei, Marek, Donaldson, Alastair

“…) for code generation via a new benchmark, Turbulence. Turbulence consists of a large set of natural language question templates , each of which is a programming problem, parameterised so that it can be asked in many different forms…”
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Teaching Python programming for bioinformatics with Jupyter notebook in the Post‐COVID ‐19 era by Gupta, Yash Munnalal, Kirana, Satwika Nindya, Homchan, Somjit, Tanasarnpaiboon, Supatcharee

“… To facilitate learning, we have modified the course to use Jupyter Notebook, which offers an alternative approach to writing custom scripts for basic DNA sequence analysis…”
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Information-Theoretical Analysis of EEG Microstate Sequences in Python by von Wegner, Frederic, Laufs, Helmut

“…We present an open-source Python package to compute information-theoretical quantities for electroencephalographic data…”
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cwepr – A Python package for analysing cw-EPR data focussing on reproducibility and simple usage by Schröder, Mirjam, Biskup, Till

“…[Display omitted] •Open-source software package for processing and analysis of cw-EPR data…”
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Percolation theory using Python by Malthe-Sørenssen, Anders

“… Readers will learn how to generate, analyze, and comprehend data and models, with detailed theoretical discussions complemented by accessible computer codes…”
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Statistics Using Python by Campesato, Oswald

“…This book is designed to offer a fast-paced yet thorough introduction to essential statistical concepts using Python code samples, and aims to assist data scientists in their daily endeavors…”
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blast2galaxy: a CLI and Python API for BLAST+ and DIAMOND searches on Galaxy servers by König, Patrick, Fiebig, Anne, Münch, Thomas, Grüning, Björn, Scholz, Uwe

“…The Galaxy workflow system is an open-source platform supporting data-intensive research in life sciences, featuring a user-friendly web interface for complex analyses without extensive programming…”
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Towards Identifying Code Proficiency Through the Analysis of Python Textbooks by Rojpaisarnkit, Ruksit, Robles, Gregorio, Kula, Raula Gaikovina, Wang, Dong, Ragkhitwetsagul, Chaiyong, Gonzalez-Barahona, Jesus M., Matsumoto, Kenichi

“…Python, one of the most prevalent programming languages today, is widely utilized in various domains, including web development, data science, machine learning, and DevOps…”
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From code to reliability: Python-powered Paraconsistent Logic for alarm detection in the power gris/ Do codigo a confiabilidade: Logica Paraconsistente impulsionada por Python para a deteccao de alarmes na rede de energia by de Oliveira, Joseffe Barroso, Gino, Joao Vitor Santa Rosa, de Lima, Carlos Jose, Filho, Joao Inacio da Silva

“… This application enables the comparison of triggered alarms with the resultant logical states obtained during the analysis…”
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Evaluating ChatGPT-4.0’s data analytic proficiency in epidemiological studies: A comparative analysis with SAS, SPSS, and R by Huang, Yeen, Wu, Ruipeng, He, Juntao, Xiang, Yingping

“…). Two researchers independently evaluated the data analysis capabilities of GPT-4's 'Data Analyst' feature against SAS, SPSS, and R across three commonly used epidemiological analysis methods…”
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A Python Multiscale Thermochemistry Toolbox (pMuTT) for thermochemical and kinetic parameter estimation by Lym, Jonathan, Wittreich, Gerhard R., Vlachos, Dionisios G.

“… Its open-source implementation in Python leverages existing scientific codes, encourages users to write scripts for their needs, and allows the code to be expanded easily…”
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Leveraging machine learning for accurate DNBR prediction using python by Mohamed Y.M. Mohsen, Meshari Al Meshari, Yasser Alzamil, Abdulrahman Alhammad, Khaled Alenazi, Atef El-Taher, Tarek F. Nagla, Mohamed A.E. Abdel-Rahman

“…This study investigates the viability of using Python scikit-learn packages, specifically regression techniques, to forecast the departure from nucleate boiling ratio (DNBR…”
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Performance analysis of localised large language models in resource-constrained edge for Python and Rust APIs by Ray, Partha Pratim, Pradhan, Mohan Pratap

“… To address this challenge, we conducted a side-by-side performance analysis of four quantised LLMs – Llama 3.2:1b, Gemma 3:1b, Granite 3.1-MoE:1b, and Qwen 2.5:0.5b…”
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Reinforest: Reinforcing Semantic Code Similarity for Cross-Lingual Code Search Models by Saieva, Anthony, Chakraborty, Saikat, Kaiser, Gail

“…This paper introduces a novel code-to-code search technique that enhances the performance of Large Language Models (LLMs…”
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A user-friendly tool to convert photon counting data to the open-source Photon-HDF5 file format by Ferschweiler, Donald, Segal, Maya, Weiss, Shimon, Michalet, Xavier

“…Photon-HDF5 is an open-source and open file format for storing photon-counting data from single molecule microscopy experiments, introduced to simplify data exchange and increase the reproducibility of data analysis…”
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An accessible, efficient, and accurate natural language processing method for extracting diagnostic data from pathology reports by Lam, Hansen, Nguyen, Freddy, Wang, Xintong, Stock, Aryeh, Lenskaya, Volha, Kooshesh, Maryam, Li, Peizi, Qazi, Mohammad, Wang, Shenyu, Dehghan, Mitra, Qian, Xia, Si, Qiusheng, Polydorides, Alexandros D.

“…) documents, which were parsed by NLP-based Python code into desired data points and delivered to Excel spreadsheets…”
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Computational Tools for the Multiscale Analysis of Hi-C Data in Bacterial Chromosomes by Varoquaux, Nelle, Lioy, Virginia S, Boccard, Frédéric, Junier, Ivan

“… Our objective is twofold. On the one hand, we aim at providing a full, understandable Python/Jupyter-based code which can be used by both computer scientists and biologists with no advanced computational background…”
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Sensitivity and uncertainty analysis in pebble-bed reactors: A study using the High-Temperature Code Package (HCP) by Yaseen, Mahmoud, Sadek, Amr, Osman, Wafaa, Altahhan, Muhammad, Wu, Xu, Avramova, Maria, Ivanov, Kostadin

“…) and Sensitivity Analysis (SA). This research aims to implement a statistical framework within HCP by leveraging the DAKOTA toolkit and Python libraries, thereby enabling UQ/SA workflows to evaluate how uncertainties influence…”
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