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  1. 4021
    “…Furthermore, the effectiveness of supervised contrastive learning is validated by ablation experiment, and the feasibility of MDDI-SCL is supported by case studies. The source codes are available at https://github.com/ShenggengLin/MDDI-SCL. …”
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    Online Artículo Texto
    MDDI-SCL: predicting multi-type drug-drug interactions via supervised contrastive learning
  2. 4022
    “…Executable versions, source codes, sequences used for development and usage instructions are available at (http://www.proteininformatics.org/mkumar/bacarscan/downloads.html) and GitHub repository (https://github.com/mkubiophysics/BacARscan).…”
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    BacARscan: an in silico resource to discern diversity in antibiotic resistance genes
  3. 4023
    por Hsu, Te-Cheng, Lin, Che
    Publicado 2023
    “…AVAILABILITY AND IMPLEMENTATION: The source codes reproducing the main results are available on GitHub: https://gitfront.io/r/user-4316673/36e8714573f3fbfa0b24690af5d1a9d5ca159cf4/scan/. …”
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    Learning from small medical data—robust semi-supervised cancer prognosis classifier with Bayesian variational autoencoder
  4. 4024
    “…Our algorithm outperforms the state-of-the-art methods in accuracy of prediction and runtime and introduces a novel method for 3D structure prediction from Hi-C data. All our source codes and data are available at https://github.com/OluwadareLab/HiC-GNN.…”
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    HiC-GNN: A generalizable model for 3D chromosome reconstruction using graph convolutional neural networks
  5. 4025
    “…The RSR package including source codes is available at http://bioinf1.indstate.edu/RSR and its pipeline source codes are also freely available at https://github.com/xuric/read-split-run for academic use. …”
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    Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data
  6. 4026
    por Yegül, Uğur
    Publicado 2023
    “…An automatic control system was developed and tested, employing a microcontroller, various sensors, appropriate open-source codes, and original software. Electrical conductivity (EC), power of hydrogen (pH), dissolved oxygen (DO), and temperature (T) values were determined successfully by the developed control system. …”
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    Development of an Embedded Software and Control Kit to Be Used in Soilless Agriculture Production Systems
  7. 4027
    “…AVAILABILITY AND IMPLEMENTATION: Source codes for PyTorch implementation of DGCCA and other DeepMOIS-MC modules are available at GitHub (https://github.com/duttaprat/DeepMOIS-MC). …”
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    Deep multi-omics integration by learning correlation-maximizing representation identifies prognostically stratified cancer subtypes
  8. 4028
    por Liao, Herui, Ji, Yongxin, Sun, Yanni
    Publicado 2023
    “…StrainScan takes short reads and a set of reference strains as input and its source codes are freely available at https://github.com/liaoherui/StrainScan. …”
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    High-resolution strain-level microbiome composition analysis from short reads
  9. 4029
    por Lu, Yue, He, Xin, Zhong, Sheng
    Publicado 2007
    “…With little effort, developers can plug their own algorithms into the OSCAR server without revealing the source codes, which will equip their command line executables with user-friendly interface and interactive analysis capability. …”
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    Cross-species microarray analysis with the OSCAR system suggests an INSR->Pax6->NQO1 neuro-protective pathway in aging and Alzheimer's disease
  10. 4030
    por Ispolatov, Iaroslav, Maslov, Sergei
    Publicado 2008
    “…The considered examples indicate that the annealing algorithm produce biologically meaningful layouts: The function of the most of the anti-hierarchical links is indeed to send a feedback signal to the upstream pathway elements. Source codes of F90 and Matlab implementation of the two algorithms are available at…”
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    Detection of the dominant direction of information flow and feedback links in densely interconnected regulatory networks
  11. 4031
    “…The ImageJ plugin with supports of batch processing is easily customized for dealing with high-content screening applications. The source codes of NeurphologyJ (interactive and high-throughput versions) and the images used for testing are freely available (see Availability).…”
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    NeurphologyJ: An automatic neuronal morphology quantification method and its application in pharmacological discovery
  12. 4032
    “…The system can be installed on a virtual computer, allowing the user to run the system alongside any other operating system. Source codes for all programs are provided under GNU license, which makes it possible to transfer the programs to other systems if so desired. …”
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    CMG-Biotools, a Free Workbench for Basic Comparative Microbial Genomics
  13. 4033
    “…Further analysis of the results of this ensemble method shows that the ensemble method can obtain more targets which could not be found by any of the single methods, and the discovered targets are more statistically significant and functionally enriched. The source codes, datasets, miRNA target predictions by all methods, and the ground truth for validation are available in the Supplementary materials.…”
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    Ensemble Methods for MiRNA Target Prediction from Expression Data
  14. 4034
    “…The iPF software package and all source codes are publicly available. CONCLUSIONS: Identification of subclusters with distinct clinical and biomolecular characteristics suggests that integration of phenomic and other omics information could lead to identification of novel mechanism-based disease sub-phenotypes. …”
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    Integrative phenotyping framework (iPF): integrative clustering of multiple omics data identifies novel lung disease subphenotypes
  15. 4035
    “…Availability and implementation: The C++ and QT source codes, the GUI applications for Windows, OS X and Linux operating systems and user manual are freely available for download under the GNU GPL v3 license at http://www.cmpe.boun.edu.tr/content/CnG. …”
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    CLUSTERnGO: a user-defined modelling platform for two-stage clustering of time-series data
  16. 4036
    “…It competes favorably with other tools on viral contig binning. The source codes are available at: https://github.com/chjiao/VirBin.…”
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    A binning tool to reconstruct viral haplotypes from assembled contigs
  17. 4037
    “…Its benchmark dataset, source codes, and documentation are available at https://github.com/zahid6454/iRNA5hmC-PS.…”
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    Accurate prediction of RNA 5-hydroxymethylcytosine modification by utilizing novel position-specific gapped k-mer descriptors
  18. 4038
    “…CONCLUSIONS: This work identified key histopathological features that correlate with patient survival and detected spatially associated genetic signatures that contribute to tumour-stroma interactions and which should be investigated as new targets in glioblastoma. The source codes and datasets used are available in GitHub: https://github.com/amin20/GBM_WSSM.…”
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    A deep convolutional neural network for segmentation of whole-slide pathology images identifies novel tumour cell-perivascular niche interactions that are associated with poor survival in glioblastoma
  19. 4039
    “…Moreover, case studies of three common lncRNAs were performed for predicting their potential lncRNA target genes and the results confirmed the effectiveness of WAFNRLTG. The source codes and all data of WAFNRLTG can be freely downloaded at https://github.com/HGDYZW/WAFNRLTG.…”
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    Online Artículo Texto
    WAFNRLTG: A Novel Model for Predicting LncRNA Target Genes Based on Weighted Average Fusion Network Representation Learning Method
  20. 4040
    “…Our proposed models, employed datasets, and all the source codes are publicly available at: (https://github.com/saikat15010/Brain-Tumor-Detection).…”
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    Accurate brain tumor detection using deep convolutional neural network
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