“…It also prioritizes the transcripts with a visualization framework that automatically integrates rich annotation with known genomic features. TGStools is a Python package freely available at Github.…”
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“…The sourmash software package uses MinHash-based sketching to create “signatures”, compressed representations of DNA, RNA, and protein sequences, that can be stored, searched, explored, and taxonomically annotated. sourmash signatures can be used to estimate sequence similarity between very large data sets quickly and in low memory, and can be used to search large databases of genomes for matches to query genomes and metagenomes. sourmash is implemented in C++, Rust, and Python, and is freely available under the BSD license at http://github.com/dib-lab/sourmash.…”
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“…We used Word2Vec and LDA implementation in the Gensim package in Python. The data presented in this article are related to the research article entitled “Integrating word embeddings and document topics with deep learning in a video classification framework” [1]. …”
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“…AVAILABILITY AND IMPLEMENTATION: PRALINE 2 is implemented in Python and available as open source software on GitHub: https://github.com/ibivu/PRALINE/.…”
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“…The data stack generated is daily measurements at a 4 × 7 km spatial resolution. The supplementary Python code package used to collect and process the data is made publicly available. …”
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“…It can be used via a single executable file or alternatively it can be used via the R or Python-based wrapper packages which are additionally provided for easier integration into existing pipelines. …”
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“…Here a new approach is developed that combines an easy to use interactive graphical interface with highly optimized and fully parallelized Python-based routines for extracting, normalizing and interpolating oversampled time-resolved XAS spectra from a raw binary stream of data acquired during operando QEXAFS studies. …”
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“…We present ProteoClade, a Python toolkit that performs taxa-specific peptide assignment, protein inference, and quantitation for multi-species proteomics experiments. …”
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“…We implement this algorithm in Python and show that the linear-time theoretical bound on the input size is achievable in practice.…”
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“…The discrete methods are implemented into a python tool. A Random Sequential Addition (RSA)-Algorithm for discrete volumes is developed and the tessellation is realized with a discrete tessellation function. …”
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“…The method, HiDeF, is available via Python and Cytoscape.…”
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“…The data from Twitter were collected through Twitterscraper Python library and we considered a set of keywords in Portuguese regarding to COVID-19. …”
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“…These microstructures were synthesized in Abaqus Standard software and their strain fields were modelled using Abaqus based static implicit analysis. The Python Development Environment (PDE) in Abaqus was used. …”
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“…This paper presents a versatile interface between Finite Element (FE) software and optimisation tools, enabling calibration of a group of FE models on a range of experimental data. It is provided as a Python toolbox which has been fully tested and verified on Windows platforms. …”
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“…The app is available as an open source in Python3 and as a desktop version. The application allows analyzing the compatibility of barcodes on a single lane of a flow cell in a set in the case of equal and arbitrary fractions. …”
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“…Therefore, we focus on a theoretical optimization of the sensor reinforced by computational methods implemented in a Python programming environment. We present an analytic model to optimize the geometry of a cantilever used as a capacitive transducer in photoacoustic spectroscopy. …”
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“…To encourage wider application and further theory development, the updated formulas are incorporated into crystIT (crystal structure and information theory), an open-source Python-based program that allows for calculating various complexity measures of crystal structures based on a standardized *.cif file.…”
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“…Triqler and its interface to MaxQuant are available as a Python module under an Apache 2.0 license from https://pypi.org/project/triqler/.…”
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“…Here, we describe mutperiod, a Python and R based toolset that quantifies nucleosome mutational periodicities and compares them across different genetic and cellular backgrounds. …”
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“…RESULTS: We developed iNucs, a user-friendly and efficient Python-based bioinformatics tool to compute and visualize nucleosome-resolved interactions using standard pairs format input generated from pairtools. …”
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