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  1. 3581
    “…Case studies indicate that VGAELDA is capable of detecting potential lncRNA-disease associations. The source code and data are available at https://github.com/zhanglabNKU/VGAELDA. …”
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    A representation learning model based on variational inference and graph autoencoder for predicting lncRNA-disease associations
  2. 3582
    por Fiscon, Giulia, Paci, Paola
    Publicado 2021
    “…CONCLUSIONS: The algorithm was successfully applied to predict off-label drugs to be repositioned against the new human coronavirus (2019-nCoV/SARS-CoV-2), and it achieved a high accuracy in the identification of well-known drug indications, thus revealing itself as a powerful tool to rapidly detect potential novel medical indications for various drugs that are worth of further investigation. SAveRUNNER source code is freely available at https://github.com/giuliafiscon/SAveRUNNER.git, along with a comprehensive user guide. …”
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    SAveRUNNER: an R-based tool for drug repurposing
  3. 3583
    “…CACTUS is written in R and source code, along with all supporting files, are available on GitHub (https://github.com/LUMC/CACTUS). …”
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    CACTUS: integrating clonal architecture with genomic clustering and transcriptome profiling of single tumor cells
  4. 3584
    “…Moreover, benchmarking on different input contigs showed that this approach overall outperformed existing SLR scaffolders, providing longer contiguity and fewer misassemblies, especially for short contigs assembled by next-generation sequencing data. The open-source code of SLR-superscaffolder is available at https://github.com/BGI-Qingdao/SLR-superscaffolder. …”
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    SLR-superscaffolder: a de novo scaffolding tool for synthetic long reads using a top-to-bottom scheme
  5. 3585
    “…The CXR dataset along with the source code and the trained model are publicly released for research purposes.…”
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    BS-Net: Learning COVID-19 pneumonia severity on a large chest X-ray dataset
  6. 3586
    por Glinsky, Gennadi V.
    Publicado 2021
    “…Collectively, reported herein observations support a model of SCARS-activation triggered singular source code facilitating the intracellular propagation and intercellular (systemic) dissemination of disease states in the human body.…”
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    Genomics-Guided Drawing of Molecular and Pathophysiological Components of Malignant Regulatory Signatures Reveals a Pivotal Role in Human Diseases of Stem Cell-Associated Retroviral Sequences and Functionally-Active hESC Enhancers
  7. 3587
    “…Last, only two studies provided publicly accessible source code and data sources fostering reproducibility. …”
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    Early Prediction of Sepsis in the ICU Using Machine Learning: A Systematic Review
  8. 3588
    “…The LigTMap web server is freely accessible at https://cbbio.online/LigTMap. The source code is released on GitHub (https://github.com/ShirleyWISiu/LigTMap) under the BSD 3-Clause License to encourage re-use and further developments. …”
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    LigTMap: ligand and structure-based target identification and activity prediction for small molecular compounds
  9. 3589
    “…AVAILABILITY: The ClustOmics source code, released under MIT license, and the results obtained on TCGA cancer data are available on GitHub: https://github.com/galadrielbriere/ClustOmics. …”
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    Consensus clustering applied to multi-omics disease subtyping
  10. 3590
    “…AVAILABILITY AND IMPLEMENTATION: The software package, source code and data of DeepDist2 are freely available at https://github.com/multicom-toolbox/deepdist and https://zenodo.org/record/4712084#.YIIM13VKhQM. …”
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    Improving deep learning-based protein distance prediction in CASP14
  11. 3591
    “…In addition, we developed GAPE (GAUGE-annotated Pseudomonas aeruginosa and Escherichia coli transcriptomic compendia for reanalysis), a Shiny Web interface that performs parallel analyses on P. aeruginosa and E. coli compendia. Source code for GAUGE and GAPE is freely available and can be repurposed to create compendia for other bacterial species. …”
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    GAUGE-Annotated Microbial Transcriptomic Data Facilitate Parallel Mining and High-Throughput Reanalysis To Form Data-Driven Hypotheses
  12. 3592
    “…It serves to reveal the tumor intra-heterogeneity. The source code of SCYN can be accessed in https://github.com/xikanfeng2/SCYN. …”
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    SCYN: single cell CNV profiling method using dynamic programming
  13. 3593
    “…On real long-read sequencing datasets, we demonstrate that BreakNet outperforms Sniffles, SVIM and cuteSV in terms of their F1 scores. The source code for the proposed method is available from GitHub at https://github.com/luojunwei/BreakNet. …”
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    BreakNet: detecting deletions using long reads and a deep learning approach
  14. 3594
    “…Additionally, the method achieved an accuracy of 84.5% and a TUA of 92.9% when applied to the entire 2018 image collection of the 100 most common killer whales. The source code of FIN-PRINT can be adapted to other species and will be publicly available.…”
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    FIN-PRINT a fully-automated multi-stage deep-learning-based framework for the individual recognition of killer whales
  15. 3595
    “…Datasets, results, and the source code of DRUIDom are fully-available at: https://github.com/cansyl/DRUIDom.…”
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    Protein domain-based prediction of drug/compound–target interactions and experimental validation on LIM kinases
  16. 3596
    “…Clinic specific contouring standards however need to be represented in the training data for successful use. Source code is available at https://github.com/jamtheim/DicomRTStructRenamerPublic…”
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    Deep learning‐based classification and structure name standardization for organ at risk and target delineations in prostate cancer radiotherapy
  17. 3597
    “…To facilitate further research, source code can be found at: https://github.com/YuOnlyLookOne/IResUnet3Plus. …”
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    Improved U-Net3+ with stage residual for brain tumor segmentation
  18. 3598
    por Lee, Ingoo, Nam, Hojung
    Publicado 2022
    “…Additional analysis confirmed the appropriate attention for BRs and the importance of transformers in BR and DTI prediction. The source code is available on GitHub (https://github.com/GIST-CSBL/HoTS). …”
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    Sequence-based prediction of protein binding regions and drug–target interactions
  19. 3599
    por Paci, Paola, Fiscon, Giulia
    Publicado 2022
    “…CONCLUSIONS: SPINNAKER source code is freely available at https://github.com/sportingCode/SPINNAKER.git together with a thoroughgoing PPT-based guideline. …”
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    SPINNAKER: an R-based tool to highlight key RNA interactions in complex biological networks
  20. 3600
    “…The proposed solution could be used for COVID19 segmentation in clinic applications. The source code is publicly available at https://github.com/RespectKnowledge/Mutiscale-based-Covid-_segmentation-usingDeep-Learning-models.…”
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    Effective multiscale deep learning model for COVID19 segmentation tasks: A further step towards helping radiologist
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