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  1. 1181
    “…Therefore, we have developed a new benchmark dataset derived from the KEGG following optimal standards of scientific computational reproducibility and including all source code needed to update the benchmark dataset as KEGG changes. …”
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    Benchmark Dataset for Training Machine Learning Models to Predict the Pathway Involvement of Metabolites
  2. 1182
    “…In the meantime, the clustering of cell subsets is improved and the original biological information in cell clustering is solved, which is covered by technical noise. The source code for the scNTImpute module is available as open source at https://github.com/qiyueyang-7/scNTImpute.git.…”
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    Imputation method for single-cell RNA-seq data using neural topic model
  3. 1183
    “…AVAILABILITY AND IMPLEMENTATION: The source code will be available at https://github.com/Ulricab/Bert-Path upon publication.…”
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    Integration of multiple terminology bases: a multi-view alignment method using the hierarchical structure
  4. 1184
    “…AVAILABILITY AND IMPLEMENTATION: Source code and documentation are available at https://www.tbi.univie.ac.at/RNA.…”
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    Modified RNAs and predictions with the ViennaRNA Package
  5. 1185
    “…AVAILABILITY AND IMPLEMENTATION: The source code is available at https://github.com/pievos101/Ensemble-GNN, and the data at Zenodo (DOI: 10.5281/zenodo.8305122).…”
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    Ensemble-GNN: federated ensemble learning with graph neural networks for disease module discovery and classification
  6. 1186
    “…AVAILABILITY AND IMPLEMENTATION: Source code, documentation, example files, and usage examples are freely available at https://github.com/stevemussmann/admixturePipeline. …”
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    AdmixPipe v3: facilitating population structure delimitation from SNP data
  7. 1187
    “…AVAILABILITY AND IMPLEMENTATION: The datasets involved in this method and the source code are freely available to academic users at https://github.com/wq-sunshine/MomdTDSRL.git.…”
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    Molecular generation strategy and optimization based on A2C reinforcement learning in de novo drug design
  8. 1188
    por Betel, Doron, Hogue, Christopher WV
    Publicado 2002
    “…The program is accessible on the web at http://bioinfo.mshri.on.ca/kangaroo/ and the source code is freely distributed at http://sourceforge.net/projects/slritools/. …”
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    Kangaroo – A pattern-matching program for biological sequences
  9. 1189
    “…CGMIM results are posted monthly and the source code can be obtained free of charge from the BC Cancer Research Centre website .…”
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    CGMIM: Automated text-mining of Online Mendelian Inheritance in Man (OMIM) to identify genetically-associated cancers and candidate genes
  10. 1190
    “…A tutorial, the software with documentation, and GPL licensed source code, can be accessed at the same web address.…”
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    Taxonomic colouring of phylogenetic trees of protein sequences
  11. 1191
    por Hau, Jörg, Muller, Michael, Pagni, Marco
    Publicado 2007
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    HitKeeper, a generic software package for hit list management
  12. 1192
    “…The BioGRID provides interaction data with monthly updates to Saccharomyces Genome Database, Flybase and Entrez Gene. Source code for the BioGRID and the linked Osprey network visualization system is now freely available without restriction.…”
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    The BioGRID Interaction Database: 2008 update
  13. 1193
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    Epigrass: a tool to study disease spread in complex networks
  14. 1194
    por Pollock, Richard F, Adryan, Boris
    Publicado 2008
    “…The dynamic visualisation of these annotations is useful, e.g., for the determination of cutoff values of predicted features to match experimental data. Program, source code and exemplary files are freely available at the BioSAVE homepage.…”
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    BioSAVE: Display of scored annotation within a sequence context
  15. 1195
    “…CONCLUSION: We show that SBM can be applied to target prediction in both plants and animals and performs well in terms of sensitivity and specificity. Open source code implementing the SBM method, together with documentation and examples are freely available for download from the address in the Availability and Requirements section.…”
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    A scoring matrix approach to detecting miRNA target sites
  16. 1196
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    Wndchrm – an open source utility for biological image analysis
  17. 1197
    por Zhang, Wei, Duan, Shiwei, Dolan, M Eileen
    Publicado 2008
    “…AVAILABILITY: The Windows executable and source code in Microsoft Visual C++ are available at Google Code (http://hapmap-filter-v1.googlecode.com/) or upon request. …”
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    HapMap filter 1.0: A tool to preprocess the HapMap genotypic data for association studies
  18. 1198
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    Purposeful selection of variables in logistic regression
  19. 1199
    “…The installation may be downloaded from: . The source code can be accessed from:…”
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    SNAVI: Desktop application for analysis and visualization of large-scale signaling networks
  20. 1200
    “…Moreover, tree size and markers subset size evaluated at each node are important considerations in RFs. Availability: The source code for EMRF written in C is available at www.infornomics.utoronto.ca/downloads/EMRF Contact: bull@mshri.on.ca Supplementary information: Supplementary data are available at www.infornomics.utoronto.ca/downloads/EMRF…”
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    EM-random forest and new measures of variable importance for multi-locus quantitative trait linkage analysis
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