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61

Bioinformatics calls the school: Use of smartphones to introduce Python for bioinformatics in high schools
Velez Rueda, Ana Julia ; Benítez, Guillermo I. ; Marchetti, Julia ; et al.
PLoS Computational Biology. February 14, 2019, Vol. 15 Issue 2, pe1006473.

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62

SciPy 1.0: fundamental algorithms for scientific computing in Python.
Virtanen P ; Gommers R ; Oliphant TE ; et al.
Publisher: Nature Pub. Group Country of Publication: United States NLM ID: 101215604 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1548-7105 (Electronic) Linking ISSN: 15487091 NLM ISO Abbreviation: Nat Methods Subsets: MEDLINE

Computational Biology hi... Computer Simulation History, 20th Century History, 21st Century Linear Models Models, Biological …
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64

Visualizing protein big data using Python and Jupyter notebooks.
Weiss CJ
Publisher: John Wiley & sons Country of Publication: United States NLM ID: 100970605 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1539-3429 (Electronic) Linking ISSN: 14708175 NLM ISO Abbreviation: Biochem Mol Biol Educ Subsets: MEDLINE

Amino Acids Big Data Humans Programming Languages Computational Biology Software
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65

scEvoNet: a gradient boosting-based method for prediction of cell state evolution
Kotov, Aleksandr ; Zinovyev, Andrei ; Monsoro-Burq, Anne-Helene
BMC Bioinformatics. March 6, 2023, Vol. 24 Issue 1

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66

ExRec: a python pipeline for generating recombination-filtered multi-locus datasets.
Potter, Sam McCarthy ; Jennings, W Bryan
Bioinformatics Advances. 2023, Vol. 3 Issue 1, p1-5. 5p.

PHYLOGENY PYTHON programming langu... AUTOMATION COMPUTATIONAL biology BIOINFORMATICS
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67

kegg_pull: a software package for the RESTful access and pulling from the Kyoto Encyclopedia of Gene and Genomes
Erik Huckvale ; Hunter N. B. Moseley
BMC Bioinformatics, Vol 24, Iss 1, Pp 1-17 (2023)

KEGG REST Application programming... Python programming langu... Command line interface Computer applications to... …
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68

PunctaFinder: An algorithm for automated spot detection in fluorescence microscopy images
Terpstra, Hanna M. ; Gomez-Sanchez, Ruben ; Veldsink, Annemiek C. ; et al.
Molecular Biology of the Cell. December, 2024, Vol. 35 Issue 12, p1O, 13 p.

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69

Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS.
Johnson JAI ; Tsang AP ; Mitchell JT ; et al.
Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101284307 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1750-2799 (Electronic) Linking ISSN: 17502799 NLM ISO Abbreviation: Nat Protoc Subsets: MEDLINE

Bayes Theorem Single-Cell Analysis Algorithms Programming Languages
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70

Regional Image Quality Scoring for 2-D Echocardiography Using Deep Learning.
Vyver, Gilles Van De ; Måsøy, Svein-Erik ; Dalen, Håvard ; et al.
Ultrasound in Medicine & Biology. Apr2025, Vol. 51 Issue 4, p638-649. 12p.

ULTRASONIC imaging PYTHON programming langu... DEEP learning SIGNAL-to-noise ratio IMAGE segmentation
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71

Common data models to streamline metabolomics processing and annotation, and implementation in a Python pipeline
Mitchell, Joshua M. ; Chi, Yuanye ; Thapa, Maheshwor ; et al.
PLoS Computational Biology. June 6, 2024, Vol. 20 Issue 6, pe1011912.

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72

Grid: A Python library for molecular integration, interpolation, differentiation, and more.
Tehrani, Alireza ; Yang, Xiaotian Derrick ; Martínez-González, Marco ; et al.
Journal of Chemical Physics. 5/7/2024, Vol. 160 Issue 17, p1-16. 16p.

PYTHON programming langu... INTERPOLATION DENSITY functional theor... COMPUTATIONAL chemistry COMPUTER software develo...
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73

Topoly: Python package to analyze topology of polymers.
Dabrowski-Tumanski P ; Rubach P ; Niemyska W ; et al.
Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium: Internet ISSN: 1477-4054 (Electronic) Linking ISSN: 14675463 NLM ISO Abbreviation: Brief Bioinform Subsets: MEDLINE

Computer Graphics Computer Simulation Internet Reproducibility of Resul... Algorithms Computational Biology me... …
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75

Python for the Life Sciences : A Gentle Introduction to Python for Life Scientists
Alexander Lancaster ; Gordon Webster ; Alexander Lancaster ; et al.

Python (Computer program... Computer programming
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76

Empowering Climate Problem-Solvers: Integrating Python & Project-Based Learning into Environmental Science Education.
Pongsophon, Pongprapan
American Biology Teacher (University of California Press). Jan2026, Vol. 88 Issue 1, p30-36. 7p.

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78

Tissue Forge: Interactive biological and biophysics simulation environment.
Sego, T. J. ; Sluka, James P. ; Sauro, Herbert M. ; et al.
PLoS Computational Biology. 10/23/2023, Vol. 19 Issue 10, p1-22. 22p. 2 Color Photographs, 11 Diagrams, 3 Graphs.

BIOPHYSICS PYTHON programming langu... CONDENSED matter physics PROGRAMMING languages USER interfaces SOFTWARE development too...
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79

Scoria: a Python module for manipulating 3D molecular data.
Ropp, Patrick ; Friedman, Aaron ; Durrant, Jacob
Journal of Cheminformatics. 9/18/2017, Vol. 9 Issue 1, p1-7. 7p.

COMPUTATIONAL biology PYTHON programming langu... THREE-dimensional modeli... MOLECULAR dynamics MOLECULAR models
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80

AXZ viewer: a web application to visualize unprocessed AFM-IR data.
Duverger, Wouter ; Ramer, Georg ; Louros, Nikolaos ; et al.
Bioinformatics. Oct2025, Vol. 41 Issue 10, p1-5. 5p.

DATA visualization ATOMIC force microscopy PYTHON programming langu... WEB-based user interface... METADATA OPEN scholarship …
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