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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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Evaluating Large Language Models in Class-Level Code Generation by Du, Xueying, Liu, Mingwei, Wang, Kaixin, Wang, Hanlin, Liu, Junwei, Chen, Yixuan, Feng, Jiayi, Sha, Chaofeng, Peng, Xin, Lou, Yiling

“…, function-level or statement-level code generation), which mainly asks LLMs to generate one single code unit (e.g…”
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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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Understanding the Robustness of Transformer-Based Code Intelligence via Code Transformation: Challenges and Opportunities by Li, Yaoxian, Qi, Shiyi, Gao, Cuiyun, Peng, Yun, Lo, David, Lyu, Michael R., Xu, Zenglin

“… Specifically, 27 and 24 code transformation strategies are implemented for two popular programming languages, Java and Python, respectively…”
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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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ribofootPrinter: A precision python toolbox for analysis of ribosome profiling data by Kerkhofs, Kyra, Guydosh, Nicholas R

“… We therefore introduce ribofootPrinter, a suite of Python tools designed to offer an accessible and modifiable set of code for analysis of data from ribosome profiling and related types of small RNA…”
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Restoring Reproducibility of Jupyter Notebooks by Wang, Jiawei, Kuo, Tzu-yang, Li, Li, Zeller, Andreas

“…Jupyter notebooks-documents that contain live code, equations, visualizations, and narrative text-now are among the most popular means to compute, present, discuss and disseminate scientific findings…”
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Method Names in Jupyter Notebooks: An Exploratory Study by Wong, Carol, Larsen, Gunnar, Huang, Rocky, Sharif, Bonita, Peruma, Anthony

“… Research has shown that high-quality names significantly improve code comprehension and the overall maintainability of software…”
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Microbench: Automated metadata management for systems biology benchmarking and reproducibility in Python by Alexander Lyulph Robert Lubbock, Lopez, Carlos F

“…) currently requires repetitious code and is difficult to store centrally for analysis. Even where virtual environments and containers are used, updates over time mean…”
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Sciviewer enables interactive visual interrogation of single-cell RNA-Seq data from the Python programming environment by Kotliar, Dylan, Colubri, Andres

“… Subsequently, users typically iterate between programmatic analyses (e.g. clustering and differential expression…”
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Transfreq: a Python package for computing the theta-to-alpha transition frequency from resting state EEG data by Vallarino, Elisabetta, Sommariva, Sara, Arnaldi, Dario, Famà, Francesco, Piana, Michele, Nobili, Flavio

“… Here we present transfreq, a Python library that allows the computation of the transition frequency from restingstate data by clustering the spectral profiles at different EEG channels based…”
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Interpreting CodeBERT for Semantic Code Clone Detection by Abid, Shamsa, Cai, Xuemeng, Jiang, Lingxiao

“…Accurate detection of semantic code clones has many applications in software engineering but is challenging because of lexical, syntactic, or structural dissimilarities in code…”
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Large Language Models can Help with Biostatistics and Coding Needed in Radiology Research by Ghosh, Adarsh, Li, Hailong, Trout, Andrew T

“… Prompts were based on statistical analyses from a peer-reviewed manuscript. The generated code was tested in R Studio for correctness, runtime errors and the ability to generate the requested visualization. EXPERIMENT 2: DEEP…”
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Differential coverage: : automating coverage analysis by Cox, Henry

“… The goal of the approaches discussed in here is to reduce the cost and barrier to entry of using coverage data analysis in large-scale projects by categorizing and prioritizing coverage changes…”
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Graph analysis and visualization: discovering business opportunity in linked data by Brath, Richard, Jonker, David

“… The companion website offers data sets, full code examples in Python, and links to all the tools covered in the book…”
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Diminished GAD67 Terminals and Ambient GABA Inhibition Associated with Reduced Motor Neuron Recruitment Threshold in the SOD1G93A ALS mouse by Venugopal, Sharmila, Ghulam-Jhelani, Zohal, Simmons, Dwayne D, Chandler, Scott

“…Pre-symptomatic studies in mouse models of the neurodegenerative motor neuron (MN) disease, Amyotrophic Lateral Sclerosis (ALS) highlight early alterations in…”
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Spatial Analysis Using Big Data by Hajime Seya, Yoshiki Yamagata

“…Spatial Analysis Using Big Data: Methods and Urban Applications helps readers understand the most powerful, state-of-the-art spatial econometric methods, focusing particularly on urban research problems…”
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The art of R programming: tour of statistical software design by Matloff, Norman

“…R is the world's most popular language for developing statistical software: Archaeologists use it to track the spread of ancient civilizations, drug companies…”
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Hindsight Logging for Model Training by Garcia, Rolando, Liu, Eric, Sreekanti, Vikram, Yan, Bobby, Dandamudi, Anusha, Gonzalez, Joseph E, Hellerstein, Joseph M, Sen, Koushik

“…; this allows developers to add log statements post-hoc, and "replay" desired log statements from checkpoint -- a process we refer to as hindsight logging…”
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UbE3-APA: A Bioinformatic Strategy to Elucidate Ubiquitin E3 Ligase Activities in Quantitative Proteomics Study by Gong, Yao, Chen, Yue

“… Yet, functional analysis of ubiquitylome dynamics and pathway activity remains challenging…”
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