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  1. 2061
    “…AVAILABILITY AND IMPLEMENTATION: Source code and documentation are freely available on https://www.github.com/eclarke/swga. …”
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    swga: a primer design toolkit for selective whole genome amplification
  2. 2062
    “…These results suggest that FSPP is a reliable tool for the identification of functional small peptides. FSPP source code can be acquired at https://www.bioinfo.org/FSPP.…”
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    FSPP: A Tool for Genome-Wide Prediction of smORF-Encoded Peptides and Their Functions
  3. 2063
    “…Kaptive Web is available for use at http://kaptive.holtlab.net/, and the source code is available at https://github.com/kelwyres/Kaptive-Web.…”
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    Kaptive Web: User-Friendly Capsule and Lipopolysaccharide Serotype Prediction for Klebsiella Genomes
  4. 2064
    “…TSVdb is available at http://www.tsvdb.com, and the source code is available at https://github.com/wenjie1991/TSVdb. …”
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    TSVdb: a web-tool for TCGA splicing variants analysis
  5. 2065
    “…Our approach identified 84.1% of the 403 spectra correctly at the genus level. Source code of the algorithm is available at https://github.com/dipcarbon/BacteriaMSLF.…”
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    Toward Spectral Library-Free Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Bacterial Identification
  6. 2066
    “…All functions have been optimized and parallelized to allow large-scale processing of sequences. The open-source code, installation instructions and vignette with use case scenarios can be downloaded from https://github.com/gogleva/SecretSanta. …”
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    SecretSanta: flexible pipelines for functional secretome prediction
  7. 2067
    por Kalecky, Karel, Cho, Young-Rae
    Publicado 2018
    “…AVAILABILITY AND IMPLEMENTATION: The source code is available at http://web.ecs.baylor.edu/faculty/cho/PrimAlign. …”
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    PrimAlign: PageRank-inspired Markovian alignment for large biological networks
  8. 2068
    por Aoki, Genta, Sakakibara, Yasubumi
    Publicado 2018
    “…AVAILABILITY AND IMPLEMENTATION: The source code of our CNN software in the deep-learning framework Chainer is available at http://www.dna.bio.keio.ac.jp/cnn/, and the dataset used for performance evaluation in this work is available at the same URL.…”
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    Convolutional neural networks for classification of alignments of non-coding RNA sequences
  9. 2069
    “…AVAILABILITY AND IMPLEMENTATION: Source code implementing the introduced computational methods is freely available at https://github.com/AaltoPML/knowledge-elicitation-for-precision-medicine. …”
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    Improving genomics-based predictions for precision medicine through active elicitation of expert knowledge
  10. 2070
    “…AVAILABILITY AND IMPLEMENTATION: Python source code and associated documentation are available at https://github.com/jaebird123/tusv.…”
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    Deconvolution and phylogeny inference of structural variations in tumor genomic samples
  11. 2071
    “…Hi-MC is available in the CRAN repository and the source code is freely available at https://github.com/vserch/himc.…”
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    Hi-MC: a novel method for high-throughput mitochondrial haplogroup classification
  12. 2072
    por Gai, Lisa, Eskin, Eleazar
    Publicado 2018
    “…AVAILABILITY AND IMPLEMENTATION: Our source code is available at https://github.com/lgai/CONFIT. …”
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    Finding associated variants in genome-wide association studies on multiple traits
  13. 2073
    “…On a 16-node multi-core cluster, HSRA is on average 2.3 times faster than previous Hadoop-based tools. Source code in Java as well as a user’s guide are publicly available for download at http://hsra.dec.udc.es.…”
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    HSRA: Hadoop-based spliced read aligner for RNA sequencing data
  14. 2074
    por MacManes, Matthew D.
    Publicado 2018
    “…Code Availability: The version controlled open-source code is available at https://github.com/macmanes-lab/Oyster_River_Protocol. …”
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    The Oyster River Protocol: a multi-assembler and kmer approach for de novo transcriptome assembly
  15. 2075
    “…Our findings provide a promising context to elucidate the biological mechanisms of metastasis, suggest potential prognostic markers and further identify therapeutic targets. The pipeline R source code is freely available, including permutation tests to assess statistical significance of the identified subnetworks.…”
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    Identification of highly connected and differentially expressed gene subnetworks in metastasizing endometrial cancer
  16. 2076
    “…This package can be downloaded via the BEAUti package manager. The source code is available at https://github.com/nicfel/Mascot.git. …”
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    MASCOT: parameter and state inference under the marginal structured coalescent approximation
  17. 2077
    “…Sirepo is available online and also within the NSLS-II firewall, with a growing number of users at other light source facilities. Our open source code is available on GitHub.…”
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    Sirepo: an open-source cloud-based software interface for X-ray source and optics simulations
  18. 2078
    “…The tool suite is available online to the scientific community and its source code has been made available.…”
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    Web-Based Interfaces for Virtual C. elegans Neuron Model Definition, Network Configuration, Behavioral Experiment Definition and Experiment Results Visualization
  19. 2079
    “…The performances of IBPP and IBPP-SVM were largely affected by the threshold and dimension of vectors, respectively. The source code and documentation are freely available at https://github.com/hahatcdg/IBPP.…”
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    Image-based promoter prediction: a promoter prediction method based on evolutionarily generated patterns
  20. 2080
    “…AVAILABILITY: The implementation of BiSpark software package and source code is available at https://github.com/bhi-kimlab/BiSpark/.…”
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    BiSpark: a Spark-based highly scalable aligner for bisulfite sequencing data
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