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  1. 5061
    “…Our method was written in python in a parallelized fashion. This characteristic allows the analysis of large systems impossible to handle otherwise. …”
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    RIP-MD: a tool to study residue interaction networks in protein molecular dynamics
  2. 5062
    “…Analyses were conducted on all data using Pandas for Python. Combining land scan data, time-use survey analyses, interview data, and ArcGIS, the resulting synthetic population was analysed via classification and regression tree (CART) analysis to identify hot-spots of need, both ethnically and geographically. …”
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    A survey of quality of life indicators in the Romanian Roma population following the ‘Decade of Roma Inclusion’
  3. 5063
    “…CONCLUSIONS: Our easy to use open source CirGO Python software package provides biologists with a succinct presentation of terms and functions that are most represented in a specific gene expression data set in a visually appealing 2D format (e.g. for reporting research results in scientific articles). …”
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    CirGO: an alternative circular way of visualising gene ontology terms
  4. 5064
    “…MetaCHIP is implemented in Python and freely available at https://github.com/songweizhi/MetaCHIP. …”
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    MetaCHIP: community-level horizontal gene transfer identification through the combination of best-match and phylogenetic approaches
  5. 5065
    “…AVAILABILITY: The Raspberry Pi image for PhyloPi, source code of the pipeline, sequence data, bash-, python- and R-scripts for the logistic regression, benchmarking as well as helper scripts are available at http://scholar.ufs.ac.za:8080/xmlui/handle/11660/7638 and https://github.com/ArmandBester/phylopi. …”
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    PhyloPi: An affordable, purpose built phylogenetic pipeline for the HIV drug resistance testing facility
  6. 5066
    “…Here, we present a novel open-source Python software package (the mrbles analysis package) that provides the necessary tools to: (1) find encoded beads in a bright-field microscopy image; (2) quantify bound fluorescent material associated with bead perimeters; (3) identify embedded ratiometric spectral codes within beads; and (4) return data aggregated by embedded code and for each individual bead. …”
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    An open-source software analysis package for Microspheres with Ratiometric Barcode Lanthanide Encoding (MRBLEs)
  7. 5067
    “…The allele frequencies were obtained using Python for Population Genomics (PyPop) software, and HLA haplotypes were estimated using HaploStats. …”
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    Determination of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 allele and haplotype frequencies in heart failure patients
  8. 5068
    “…The results show that scNBMF is a more powerful tool in large-scale scRNAseq data analysis. scNBMF was implemented in R and Python, and the source code are freely available at https://github.com/sqsun.…”
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    A fast and efficient count-based matrix factorization method for detecting cell types from single-cell RNAseq data
  9. 5069
    por Hiscock, Tom W.
    Publicado 2019
    “…Our method can be readily applied to biological networks of any type and size, and is provided as an open-source and easy-to-use python module, GeneNet. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12859-019-2788-3) contains supplementary material, which is available to authorized users.…”
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    Adapting machine-learning algorithms to design gene circuits
  10. 5070
    “…Finally, MACADAM can be downloaded as a single file and queried with SQLite or python command lines or explored through a web interface.…”
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    The MACADAM database: a MetAboliC pAthways DAtabase for Microbial taxonomic groups for mining potential metabolic capacities of archaeal and bacterial taxonomic groups
  11. 5071
    “…CONCLUSIONS: SpliceV is an easy-to-use splicing visualization tool, compatible with both Python 2.7 and 3+, and distributed under the GNU Public License. …”
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    SpliceV: analysis and publication quality printing of linear and circular RNA splicing, expression and regulation
  12. 5072
    “…We have released a user-friendly python package of VPAC in Github (https://github.com/ShengquanChen/VPAC). …”
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    VPAC: Variational projection for accurate clustering of single-cell transcriptomic data
  13. 5073
    “…Results showed that leopard, chacma baboon, Cape porcupine, monitor lizard species, puff adder, African rock python, and black-backed jackal were the species most used in the traditional medicinal trade. …”
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    Traditional medicinal animal use by Xhosa and Sotho communities in the Western Cape Province, South Africa
  14. 5074
    “…The software, developed with the Python programming language, is modular, extensible and implements “best-practice” methods in computational biology. …”
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    A Novel Open Access Web Portal for Integrating Mechanistic and Toxicogenomic Study Results
  15. 5075
    “…PeakProbe makes extensive use of cctbx libraries, and requires a PHENIX licence and an up-to-date phenix.python environment for execution.…”
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    Prediction of models for ordered solvent in macromolecular structures by a classifier based upon resolution-independent projections of local feature data
  16. 5076
    “…We provide the entire processing pipeline as an open source python package. Our method will facilitate new research to study lianas as it enables the monitoring of liana abundance, growth and biomass in forest plots. …”
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    Semi-automatic extraction of liana stems from terrestrial LiDAR point clouds of tropical rainforests
  17. 5077
    “…We also provide open materials, including a Python implementation of the structure measure and code for a single-page web application to run simple cross-modal tasks. …”
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    Cross-modal associations and synesthesia: Categorical perception and structure in vowel–color mappings in a large online sample
  18. 5078
    “…RESULTS: We introduce the Python package nanite, which automates all basic aspects of FD data analysis, including data import, tip-sample separation, base line correction, contact point retrieval, and model fitting. …”
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    nanite: using machine learning to assess the quality of atomic force microscopy-enabled nano-indentation data
  19. 5079
    “…EMULSION provides a command-line tool for checking models, producing model diagrams, running simulations, and plotting outputs. Written in Python 3, EMULSION runs on Linux, MacOS, and Windows. …”
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    EMULSION: Transparent and flexible multiscale stochastic models in human, animal and plant epidemiology
  20. 5080
    “…For each technique, we provide Python codes, to allow interested readers to experiment with the cited algorithms on their own diagnostic problems. …”
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    Cancer Diagnosis Using Deep Learning: A Bibliographic Review
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