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  1. 1681
    “…AVAILABILITY AND IMPLEMENTATION: The source code for an implementation of Effusion is freely available at https://github.com/babbittlab/effusion. …”
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    Effusion: prediction of protein function from sequence similarity networks
  2. 1682
    “…It is implemented in Python. CABS-flex source code, wiki with examples of use and installation instructions for Linux, macOS and Windows are available from the CABS-flex standalone repository at https://bitbucket.org/lcbio/cabsflex.…”
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    CABS-flex standalone: a simulation environment for fast modeling of protein flexibility
  3. 1683
    “…Given these results and the advantages of applying the same image analysis method uniformly across all images in an experiment, we suggest that MyoCount will be a useful research tool and we publish its source code and instructions for its use alongside this article.…”
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    MyoCount: a software tool for the automated quantification of myotube surface area and nuclear fusion index
  4. 1684
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    IPCAPS: an R package for iterative pruning to capture population structure
  5. 1685
    “…The databases, the source code, and a guide to build the platform within a Docker container are available at GitLab. …”
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    TranscriptAchilles: a genome-wide platform to predict isoform biomarkers of gene essentiality in cancer
  6. 1686
    “…In this tutorial paper, we provide basic demonstrations of the strength of raincloud plots and similar approaches, outline potential modifications for their optimal use, and provide open-source code for their streamlined implementation in R, Python and Matlab ( https://github.com/RainCloudPlots/RainCloudPlots). …”
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    Raincloud plots: a multi-platform tool for robust data visualization
  7. 1687
    “…We demonstrate our open source plant imaging and processing solution (‘PhenoBox’/‘PhenoPipe’) and provide construction plans, source code and documentation to rebuild the system. …”
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    The ‘PhenoBox’, a flexible, automated, open‐source plant phenotyping solution
  8. 1688
    “…The demo application, Docker image, and source code can be downloaded from project homepage.…”
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    Linking De Novo Assembly Results with Long DNA Reads Using the dnaasm-link Application
  9. 1689
    “…Hence, FARDEEP represents a novel robust algorithm to complement the existing toolkit for the characterization of tissue-infiltrating immune cell landscape. The source code for FARDEEP is implemented in R and available for download at https://github.com/YuningHao/FARDEEP.git.…”
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    Fast and robust deconvolution of tumor infiltrating lymphocyte from expression profiles using least trimmed squares
  10. 1690
    por Pividori, Milton, Im, Hae Kyung
    Publicado 2019
    “…It works with PostgreSQL and a Docker image is available for easy deployment. The source code and documentation is available in Github: https://github.com/hakyimlab/ukbrest.…”
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    ukbREST: efficient and streamlined data access for reproducible research in large biobanks
  11. 1691
    “…In addition, we also contributed two new anticancer peptides benchmark datasets, ACP740 and ACP240, in this work. The source code and datasets are available at https://github.com/haichengyi/ACP-DL.…”
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    ACP-DL: A Deep Learning Long Short-Term Memory Model to Predict Anticancer Peptides Using High-Efficiency Feature Representation
  12. 1692
    “…In addition, a Maple source code for illustrating DDP solutions as nested pie charts is also included.…”
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    DDmap: a MATLAB package for the double digest problem using multiple genetic operators
  13. 1693
    “…AVAILABILITY AND IMPLEMENTATION: Source code is freely available under the Apache License, Version 2.0: https://github.com/Ensembl/VEP_plugins. …”
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    A plugin for the Ensembl Variant Effect Predictor that uses MaxEntScan to predict variant spliceogenicity
  14. 1694
    “…To enhance reproducibility of the analyses, users have access to historical data for the ontology and the annotations. The source code for the standalone program and the web server are made available with an open-source license.…”
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    FunSet: an open-source software and web server for performing and displaying Gene Ontology enrichment analysis
  15. 1695
    “…AVAILABILITY AND IMPLEMENTATION: Source code of CFNet is available at: https://github.com/bchidest/CFNet. …”
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    Rotation equivariant and invariant neural networks for microscopy image analysis
  16. 1696
    “…AVAILABILITY AND IMPLEMENTATION: Its source code is available at https://github.com/compbel/SCIFIL.…”
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    Inference of clonal selection in cancer populations using single-cell sequencing data
  17. 1697
    “…AVAILABILITY AND IMPLEMENTATION: The source code for Hintra is available at https://github.com/sahandk/HINTRA.…”
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    Collaborative intra-tumor heterogeneity detection
  18. 1698
    “…AVAILABILITY AND IMPLEMENTATION: The source code of DeepPhos is publicly deposited at https://github.com/USTCHIlab/DeepPhos. …”
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    DeepPhos: prediction of protein phosphorylation sites with deep learning
  19. 1699
    “…AVAILABILITY AND IMPLEMENTATION: The source code of the R package is available under the MIT license. …”
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    admixr—R package for reproducible analyses using ADMIXTOOLS
  20. 1700
    “…Even with the limitation in detecting variants in expressed regions only, our method proves to be a reliable alternative for SNP identification using RNA-seq data. The source code and user manuals are available at https://modupeore.github.io/VAP/.…”
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    Variant analysis pipeline for accurate detection of genomic variants from transcriptome sequencing data
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