Search Results - python algorithm package

Python algorithm package for automated Estimation of major legume root traits using two dimensional images

Authors: Amit Ghimire Yong Suk Chung Sungmoon Jeong et al.

Source: Sci Rep
Scientific Reports, Vol 15, Iss 1, Pp 1-15 (2025)

Subject Terms: Threshold, Science, Fabaceae, Root traits, Legumes, Plant Roots, Article, Python algorithm, Image processing, Image Processing, Computer-Assisted, Medicine, Algorithms, Software

Access URL: https://pubmed.ncbi.nlm.nih.gov/40025179
https://doaj.org/article/04ecbc529a424a5087ac6abb9ae7b365

BCI Toolbox: An open-source python package for the Bayesian causal inference model.

Authors: Zhu, Haocheng Beierholm, Ulrik Shams, Ladan

Source: PLoS Computational Biology. 20(7)

Subject Terms: Bayes Theorem, Humans, Algorithms, Computational Biology, Software, Brain-Computer Interfaces

File Description: application/pdf

Access URL: https://escholarship.org/uc/item/1h51z84m
https://escholarship.org/content/qt1h51z84m/qt1h51z84m.pdf

MUMOTT: A Python package for the analysis of multi-modal tensor tomography data

Authors: Nielsen, Leonard Carlsen, Mads Wang, Sici et al.

Source: Journal of Applied Crystallography mumott – a Python library for the analysis of multi-modal tensor tomography data. 58(Pt 5):1834-1845

Subject Terms: small-angle X-ray scattering, wide-angle X-ray scattering, software, reconstruction, tensor tomography

File Description: electronic

Access URL: https://research.chalmers.se/publication/549253
https://research.chalmers.se/publication/549253/file/549253_Fulltext.pdf

NIRFASTerFF: an accessible, cross-platform Python package for fast photon modeling.

Authors: Cao J Montero-Hernandez S Mesquita RC et al.

Source: Journal of biomedical optics [J Biomed Opt] 2025 Nov; Vol. 30 (11), pp. 115001. Date of Electronic Publication: 2025 Nov 03.

Publication Type: Journal Article

Journal Info: Publisher: Published by SPIE--the International Society for Optical Engineering in cooperation with International Biomedical Optics Society Country of Publication: United States NLM ID: 9605853 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1560-2281 (Electronic) Linking ISSN: 10833668 NLM ISO Abbreviation: J Biomed Opt Subsets: MEDLINE

MeSH Terms: Photons* , Image Processing, Computer-Assisted*/methods , Software* , Optical Imaging*/methods, Monte Carlo Method ; Algorithms ; Finite Element Analysis ; Computer Simulation ; Phantoms, Imaging

ReSurfEMG: A Python Package for Comprehensive Analysis of Respiratory Surface EMG.

Authors: Warnaar RSP Moore CM Baccinelli W et al.

Source: Sensors (Basel, Switzerland) [Sensors (Basel)] 2025 Oct 19; Vol. 25 (20). Date of Electronic Publication: 2025 Oct 19.

Publication Type: Journal Article

Journal Info: Publisher: MDPI Country of Publication: Switzerland NLM ID: 101204366 Publication Model: Electronic Cited Medium: Internet ISSN: 1424-8220 (Electronic) Linking ISSN: 14248220 NLM ISO Abbreviation: Sensors (Basel) Subsets: MEDLINE

MeSH Terms: Electromyography*/methods , Respiratory Muscles*/physiology, Humans ; Signal Processing, Computer-Assisted ; Signal-To-Noise Ratio ; Algorithms ; Respiration, Artificial

A Python package for fast GPU-based proton pencil beam dose calculation.

Authors: Bhattacharya M Reamy C Li H et al.

Source: Journal of applied clinical medical physics [J Appl Clin Med Phys] 2025 Jun; Vol. 26 (6), pp. e70093. Date of Electronic Publication: 2025 Apr 09.

Publication Type: Journal Article

Journal Info: Publisher: Wiley on behalf of American Association of Physicists in Medicine Country of Publication: United States NLM ID: 101089176 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1526-9914 (Electronic) Linking ISSN: 15269914 NLM ISO Abbreviation: J Appl Clin Med Phys Subsets: MEDLINE

MeSH Terms: Radiotherapy Planning, Computer-Assisted*/methods , Proton Therapy*/methods , Algorithms* , Phantoms, Imaging* , Radiotherapy, Intensity-Modulated*/methods , Neoplasms*/radiotherapy , Software* , Computer Graphics*, Humans ; Radiotherapy Dosage ; Monte Carlo Method

FIBOS: R and python packages for analyzing protein packing and structure.

Authors: Soares HHM Romanelli JPR Fleming PJ et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2025 Sep 01; Vol. 41 (9).

Publication Type: Journal Article

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

MeSH Terms: Software* , Proteins*/chemistry, Protein Conformation ; Algorithms ; Models, Molecular ; Machine Learning ; Computational Biology/methods

MolGraph: a Python package for the implementation of molecular graphs and graph neural networks with TensorFlow and Keras.

Authors: Kensert A Desmet G Cabooter D

Source: Journal of computer-aided molecular design [J Comput Aided Mol Des] 2024 Dec 05; Vol. 39 (1), pp. 3. Date of Electronic Publication: 2024 Dec 05.

Publication Type: Journal Article

Journal Info: Publisher: Springer Country of Publication: Netherlands NLM ID: 8710425 Publication Model: Electronic Cited Medium: Internet ISSN: 1573-4951 (Electronic) Linking ISSN: 0920654X NLM ISO Abbreviation: J Comput Aided Mol Des Subsets: MEDLINE

MeSH Terms: Neural Networks, Computer* , Software* , Algorithms* , Machine Learning*

SleepEEGpy: a Python-based software integration package to organize preprocessing, analysis, and visualization of sleep EEG data.

Authors: Falach R Belonosov G Schmidig FJ et al.

Source: Computers in biology and medicine [Comput Biol Med] 2025 Jun; Vol. 192 (Pt A), pp. 110232. Date of Electronic Publication: 2025 Apr 26.

Publication Type: Journal Article

Journal Info: Publisher: Elsevier Country of Publication: United States NLM ID: 1250250 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-0534 (Electronic) Linking ISSN: 00104825 NLM ISO Abbreviation: Comput Biol Med Subsets: MEDLINE

MeSH Terms: Electroencephalography*/methods , Software* , Signal Processing, Computer-Assisted* , Sleep*/physiology, Humans ; Algorithms

Calib-RT: an open source python package for peptide retention time calibration in DIA mass spectrometry data.

Authors: Zhang Y Hu C Wu X et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2024 Jul 01; Vol. 40 (7).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

MeSH Terms: Peptides*/chemistry , Peptides*/analysis , Software* , Algorithms* , Mass Spectrometry*/methods , Proteomics*/methods, Calibration

glabcmcmc: a Python package for ABC-MCMC with local and global moves.

Authors: Cao, Xuefei Wang, Shijia Zhou, Yongdao

Source: Statistical Theory & Related Fields. Jun2025, Vol. 9 Issue 2, p168-177. 10p.

Subject Terms: *INTEGRATED software, *ALGORITHMS

Optimal dwelling time prediction for package tour using K‐nearest neighbor classification algorithm.

Authors: Wahyutama, Aria Bisma Hwang, Mintae

Source: ETRI Journal. Jun2024, Vol. 46 Issue 3, p473-484. 12p.

Subject Terms: K-nearest neighbor classification, Package tours, Classification algorithms, Python programming language, Web-based user interfaces, Travel agents

Python algorithm package for automated Estimation of major legume root traits using two dimensional images.

Authors: Ghimire, Amit Chung, Yong Suk Jeong, Sungmoon et al.

Source: Scientific Reports; 3/1/2025, Vol. 15 Issue 1, p1-15, 15p

Subject Terms: MUNG bean, STANDARD deviations, PYTHON programming language, IMAGE processing, SURFACE area

RDCanon: A Python Package for Canonicalizing the Order of Tokens in SMARTS Queries.

Authors: Mahjour BA Coley CW

Source: Journal of chemical information and modeling [J Chem Inf Model] 2024 Apr 22; Vol. 64 (8), pp. 2948-2954. Date of Electronic Publication: 2024 Mar 15.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

MeSH Terms: Algorithms* , Software*, Programming Languages ; Cheminformatics/methods ; Databases, Chemical

Noisecut: a python package for noise-tolerant classification of binary data using prior knowledge integration and max-cut solutions.

Authors: Samadi ME Mirzaieazar H Mitsos A et al.

Source: BMC bioinformatics [BMC Bioinformatics] 2024 Apr 20; Vol. 25 (1), pp. 155. Date of Electronic Publication: 2024 Apr 20.

Publication Type: Journal Article

Journal Info: Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105 (Electronic) Linking ISSN: 14712105 NLM ISO Abbreviation: BMC Bioinformatics Subsets: MEDLINE

MeSH Terms: Algorithms* , Software*, Humans ; Supervised Machine Learning ; Machine Learning

PUCHIK: A Python Package To Analyze Molecular Dynamics Simulations of Aspherical Nanoparticles.

Authors: Ishkhanyan H Santana-Bonilla A Lorenz CD

Source: Journal of chemical information and modeling [J Chem Inf Model] 2025 Feb 24; Vol. 65 (4), pp. 1694-1701. Date of Electronic Publication: 2025 Feb 10.

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

MeSH Terms: Molecular Dynamics Simulation* , Nanoparticles*/chemistry , Software*, Algorithms

Accelerating item factor analysis on GPU with Python package xifa.

Authors: Huang PH; Department of Psychology, National Chengchi University, 64, Section 2, Zhi-Nan Road, Taipei City, Taiwan. psyphh@nccu.edu.tw.

Source: Behavior research methods [Behav Res Methods] 2023 Dec; Vol. 55 (8), pp. 4403-4418. Date of Electronic Publication: 2023 Jan 10.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Springer Country of Publication: United States NLM ID: 101244316 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1554-3528 (Electronic) Linking ISSN: 1554351X NLM ISO Abbreviation: Behav Res Methods Subsets: MEDLINE

MeSH Terms: Computer Graphics* , Algorithms*, Humans

Pymaginverse: A python package for global geomagnetic field modeling

Authors: Out, Frenk Schanner, Maximilian van Grinsven, Liz et al.

Source: Applied Computing and Geosciences vol.25 (2025)

Index Terms: Geomagia, Open research, Paleomagnetism, RLS geomagnetic models, Article

URL: https://research-portal.uu.nl/en/publications/ac7eccec-f261-4bd9-b27b-116f51590aee
https://research-portal.uu.nl/ws/files/252700847/1-s2.0-S2590197425000047-main.pdf
https://research-portal.uu.nl/ws/files/252700847/1-s2.0-S2590197425000047-main.pdf

PyPhase - A Python package for X-ray phase imaging

Authors: Langer, Max Zhang, Yuhe Figueirinhas, Diogo et al.

Contributors: Langer, Max Zhang, Yuhe Figueirinhas, Diogo et al.

Source: Journal of Synchrotron Radiation. 28:1261-1266

Subject Terms: Natural Sciences, Mathematical Sciences, Probability Theory and Statistics, Naturvetenskap, Matematik, Sannolikhetsteori och statistik

Access URL: https://doi.org/10.1107/S1600577521004951

PyBrOpS: a Python package for breeding program simulation and optimization for multi-objective breeding.

Authors: Shrote RZ Thompson AM

Source: G3 (Bethesda, Md.) [G3 (Bethesda)] 2024 Oct 07; Vol. 14 (10).

Publication Type: Journal Article

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 101566598 Publication Model: Print Cited Medium: Internet ISSN: 2160-1836 (Electronic) Linking ISSN: 21601836 NLM ISO Abbreviation: G3 (Bethesda) Subsets: MEDLINE

MeSH Terms: Software* , Plant Breeding*/methods , Computer Simulation*, Algorithms ; Breeding ; Models, Genetic