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  1. 4501
    “…AVAILABILITY AND IMPLEMENTATION: Source code is available at https://github.com/yjzhang/uncurl_python. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.…”
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    Scalable preprocessing for sparse scRNA-seq data exploiting prior knowledge
  2. 4502
    “…MetQuest is available as a Python package, and the source codes can be found at https://github.com/RamanLab/metquest.…”
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    Enumerating all possible biosynthetic pathways in metabolic networks
  3. 4503
    “…Here we describe the Python package Venomix, which streamlines these processes using common bioinformatic tools along with ToxProt, a publicly available annotated database comprised of characterized venom proteins. …”
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    Venomix: a simple bioinformatic pipeline for identifying and characterizing toxin gene candidates from transcriptomic data
  4. 4504
    “…DVH Analytics is developed using Python, including libraries such as pydicom, dicompyler, psycopg2, SciPy, Statsmodels, and Bokeh for parsing DICOM files, computing DVHs, communicating with a PostgreSQL database, performing statistical analyses, and creating a web‐based user interface. …”
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    DVH Analytics: A DVH database for clinicians and researchers
  5. 4505
    “…AVAILABILITY AND IMPLEMENTATION: CNR is available as a python module at https://github.com/NKI-CCB/cnr. Additionally, code to reproduce all figures is available at https://github.com/NKI-CCB/CNR-analyses. …”
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    Comparative Network Reconstruction using mixed integer programming
  6. 4506
    “…Most respondents (78%) identified lack of adequate data analysis training (e.g., R, Python) as a main challenge, in addition to not having the proper database or software (54%) to expedite analysis. …”
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    Data challenges of biomedical researchers in the age of omics
  7. 4507
    “…To resolve this issue, we created ‘CombCount’ a python program that automatically detects uncapped cells to speed up measurements of capped brood and capped honey on photos of frames. …”
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    The development of honey bee colonies assessed using a new semi-automated brood counting method: CombCount
  8. 4508
    por Sharma, Anuj, Manolakos, Elias S.
    Publicado 2018
    “…We present pyMCPSC, a Python based utility we developed to allow users to perform MCPSC efficiently, by exploiting the parallelism afforded by the multi-core CPUs of today’s desktop computers. …”
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    Multi-criteria protein structure comparison and structural similarities analysis using pyMCPSC
  9. 4509
    “…ITSxpress is available as a QIIME 2 plugin and a stand-alone application installable from the Python package index, Bioconda, and Github.…”
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    ITSxpress: Software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis
  10. 4510
    “…We have made the MATLAB and Python code used for the analyses in this paper publicly available through our Github repository at https://github.com/Eden-Kramer-Lab/popTRT.…”
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    A common goodness-of-fit framework for neural population models using marked point process time-rescaling
  11. 4511
    “…Comprising of streamlined Python modules with an easy-to-use standalone graphical user interface, CLIPick robustly identifies significant peaks and quantitatively defines footprint regions within which RNA–protein interactions were occurred. …”
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    CLIPick: a sensitive peak caller for expression-based deconvolution of HITS-CLIP signals
  12. 4512
    “…Logistic regression (LR) and artificial neural network (ANN) models were implemented using Python (Version 3.7.0). The F(1), precision, and recall were compared between the LR and the ANN models. …”
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    Development of a prediction model for pancreatic cancer in patients with type 2 diabetes using logistic regression and artificial neural network models
  13. 4513
    “…The artificial intelligence methods were implemented in the Python programming environment to achieve an annual precipitation rate. …”
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    Large-scale association analysis of climate drought and decline in groundwater quantity using Gaussian process classification (case study: 609 study area of Iran)
  14. 4514
    “…SUBJECTS AND METHODS: An ANN was developed in the Python programming language. In the training phase, 186 microphotographs from Romanowsky/Pap-stained smears of papillary carcinoma and 184 microphotographs from smears of other thyroid lesions (at ×10 and ×40 magnification) were used for training the ANN. …”
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    Artificial Intelligence in Cytopathology: A Neural Network to Identify Papillary Carcinoma on Thyroid Fine-Needle Aspiration Cytology Smears
  15. 4515
    “…IsoCorrectoR’s correction performance agreed well with manual calculations and other available tools including Python-based IsoCor and Perl-based ICT. IsoCorrectoR can be downloaded as an R-package from: http://bioconductor.org/packages/release/bioc/html/IsoCorrectoR.html.…”
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    Correcting for natural isotope abundance and tracer impurity in MS-, MS/MS- and high-resolution-multiple-tracer-data from stable isotope labeling experiments with IsoCorrectoR
  16. 4516
    por Campbell, Kieran R, Yau, Christopher
    Publicado 2019
    “…AVAILABILITY AND IMPLEMENTATION: An open source implementation is available as an R package at http://www.github.com/kieranrcampbell/ouija and as a Python/TensorFlow package at http://www.github.com/kieranrcampbell/ouijaflow. …”
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    A descriptive marker gene approach to single-cell pseudotime inference
  17. 4517
    “…We formally implement the workflow using a generic Python library that we introduce for validation tests on neural network activity data. …”
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    Reproducible Neural Network Simulations: Statistical Methods for Model Validation on the Level of Network Activity Data
  18. 4518
    “…Here we introduce Barnaba, a Python library aimed at facilitating the analysis of nucleic acid structures and molecular simulations. …”
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    Barnaba: software for analysis of nucleic acid structures and trajectories
  19. 4519
    “…The algorithms used in this study are implemented in a freely available Python package ChromaWalker (https://bitbucket.org/ZhenWahTan/chromawalker).…”
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    Exploring chromatin hierarchical organization via Markov State Modelling
  20. 4520
    “…We have compared the Illumina TrueSeq and both Agilent SureSelect and HaloPlex sequencing technologies. We have developed Python scripts to evaluate the coverage for each of these products. …”
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    Coverage rate of ADME genes from commercial sequencing arrays
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