“…This article demonstrates how to create Chemical Space Networks (CSNs) using a Python RDKit and NetworkX workflow. CSNs are a type of network visualization that depict compounds as nodes connected by edges, defined as a pairwise relationship such as a 2D fingerprint similarity value. …”
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“…The simulations are performed using Python by comparing LSTMDL model with deep neural multilayer perceptron (DNMLP), bidirectional LSTM (Bi-LSTM), gated recurrent units (GRU), hybrid ensemble model (HEM), and hybrid deep learning model (CNN + LSTM) comprising convolutional neural network (CNN) and LSTM on DDoS-SDN (Mendeley Dataset), NSLKDD, UNSW-NB15, and IoTID20 datasets. …”
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“…It also enables users to search for existing ASVs and associated Living Atlas records using the Basic Local Alignment Search Tool, or via filters on taxonomy and sequencing details. The ASV portal is a Python-Flask/jQuery web interface, implemented as a multi-container docker service, and is an integral part of the Swedish Biodiversity Data Infrastructure. …”
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“…We applied the mean decrease Gini (MDG) approach in random forest to examine how these changes are influenced by land attributes, relying on the CART algorithm in Python. This approach was also compared with Geographically Weighted Regression (GWR). …”
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“…The anaconda—Jupyter notebook is used to develop various python programming modules for text mining, data processing, and Machine Learning (ML) methods. …”
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“…We extend the method to the case of two periodic signals, generally with incommensurable frequencies, and present a particular case for which a strong mixed response to both signals is observed, i.e. where the response to the sum of signals differs significantly from the sum of responses to the single signals. We provide Python code for our computational method: https://github.com/jannikfranzen/theta_neuron.…”
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“…Subsequently, the privileged substructures tightly associated with the inhibition of the Na(v)1.5 ion channel were extracted using the bioalerts Python package. In the validation set, the RF‐Graph model performed best. …”
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“…The tool is an open-source web application implemented in Python and the Django framework that leverages other commonly-used specialised geodatabase and map server tools. …”
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“…We used VOS Viewer, CiteSpace, R-bibliometrix and Python for bibliometric analysis. RESULTS: We identified 2,388 records published in 593 journals by 9,886 authors from 2,174 universities/institutions in 91 countries/regions. …”
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“…When tested on five publicly available scRNA-seq data, DGAN outperformed every single baseline method paralleled, with respect to downstream functional analysis including cell data visualization, clustering, classification and differential expression analysis. DGAN is executed in Python and is accessible at https://github.com/dikshap11/DGAN.…”
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“…A Flask (customizable Python framework) application programming interface (API) was used to deploy the trained ML model with the highest accuracy as a web application. …”
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“…Finally, we provide an easy-to-use Python implementation of scTOP. Our results suggest that physics-inspired order parameters can be an important tool for understanding development and characterizing engineered cells.…”
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“…AVAILABILITY AND IMPLEMENTATION: Snekmer is written in Python using Snakemake. Code and data used in this article, along with tutorial notebooks, are available at http://github.com/PNNL-CompBio/Snekmer under an open-source BSD-3 license. …”
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“…We present MovementRx, the first gait analysis modelling application that correctly models the deviations of joints kinematics and kinetics both in 3 and 1 degrees of freedom; presented with easy-to-understand color maps for clinicians with limited statistical training. MovementRx is a python-based versatile GUI-enabled movement analysis decision support system, that provides a holistic view of all lower limb joints fundamental to the kinematic/kinetic chain related to functional gait. …”
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“…CONCLUSION: Two case studies in human liver and brain show how Pathonoia can support novel hypotheses on microbial infection exacerbating disease. The Python package for Pathonoia sample analysis and a guided analysis Jupyter notebook for bulk RNAseq datasets are available on GitHub. …”
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“…METHODS: PubMed publications under “triple-negative breast cancer” were searched and downloaded between January 2005 and 2022. R and Python extracted MeSH terms, geographic information, and other abstracts from metadata. …”
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“…Regarding compilation within XLA, results show that for the CPU platform of certain computers and certain simple numerical models on the GPU platform, XLA achieves high efficiency (> 80%) for large problems and acceptable efficiency (10%~80%) for medium-size problems–the gap is from the overhead cost of Python. Unsatisfactory performance is found for the CPU platform of other computers (operations are compiled in a non-optimal way) and for high-dimensional complex models for the GPU platform, where each GPU thread in XLA handles 4 (single precision) or 2 (double precision) output elements–hoping to exploit the high-performant instructions that can read/write 4 or 2 floating-point numbers with one instruction. …”
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“…The present study follows the most recent literature on understanding public perceptions — which acknowledges Twitter to be an abundant source of information on public discussions on any global issue, including the pandemic. A Python-based code is developed to extract Twitter data spanning over a year, and analyze the presence of covid-environment related keywords and other attributes. …”
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“…One of the service layers of the platform is based on Jupyter notebooks and the Python programming language to enable exploratory visualization and interactive analysis of big geospatial and non-geospatial datasets [2]. …”
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“…The resulting code is written using a patterns-based framework within a high level, productivity language (such as Python). Then a separate system is used by a small group of efficiency programmers to translate that code into a highly optimized program. …”
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