“…The MFEprimer-3.0 server is freely accessible without any login requirement at: https://mfeprimer3.igenetech.com/ and https://www.mfeprimer.com/. The source code for the command-line version is available upon request.…”
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“…AVAILABILITY AND IMPLEMENTATION: The source code for deepRAM is available at https://github.com/MedChaabane/deepRAM. …”
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“…It has many features such as batch effect estimation and removal, quality check with several visualization options, enrichment analysis with multiple biological databases, identification of patterns using advanced methods such as weighted gene co-expression network analysis, summarizing analysis as power point presentation and all results as tables via a one-click feature. The source code is published on GitHub (https://github.com/schultzelab/Shiny-Seq) and licensed under GPLv3. …”
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“…We provide open access to all source code and data generated.…”
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“…We applied EdgeScaping to a human tumor GEM to identify sets of genes that exhibit conventional and non-conventional interdependent non-linear behavior associated with brain specific tumor sub-types that would be eliminated in conventional bottom-up construction of GCNs. Edgescaping source code is available at https://github.com/bhusain/EdgeScaping under the MIT license.…”
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“…The data of DRAMP can be downloaded by dataset and activity, and the website source code is also available on dedicatedly designed download webpage. …”
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“…This approach demonstrates how semantic web technologies and methodologies can contribute to biomedical and clinical research. The source code and links to the web tool are available at https://github.com/dewancse/model-discovery-tool…”
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“…AVAILABILITY AND IMPLEMENTATION: The source code and executables of SVIM are available on Github: github.com/eldariont/svim. …”
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“…AVAILABILITY AND IMPLEMENTATION: A web server, stand-alone binaries for Linux, MacOS and Windows and C++ source code are freely available from http://schuellerlab.org/dr_sasa/. …”
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“…We have implemented p(13)CMFA in Iso2Flux, our in-house developed isotopic steady-state (13)C MFA software. The source code is freely available on GitHub (https://github.com/cfoguet/iso2flux/releases/tag/0.7.2).…”
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“…The survey and the evaluations will help scientists with identifying efficient alternatives to the costly alignment algorithm, saving thousands of computational hours. AVAILABILITY: The source code of the benchmarking tool is available as Supplementary Materials.…”
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“…We expect that this evaluation will allow researchers and practitioners to apply the current search techniques more reliably and that it will help them to select the right solution for their daily work. AVAILABILITY: The source code (of seven ranking algorithms), ground truths and experimental results are available at https://github.com/danielapoliveira/bioont-search-benchmark…”
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“…AVAILABILITY AND IMPLEMENTATION: The C++ source code of SCL is freely available at http://dna.cs.miami.edu/SCL/. …”
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“…ChromaClade is available for Windows, macOS and Unix or Linux; program executables and source code are available at github.com/chrismonit/chroma_clade.…”
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“…First, we enabled the use of AD in OpenSim through a custom source code transformation tool and through the operator overloading tool ADOL-C. …”
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“…The proximal distance algorithm in each case is competitive or superior in speed to traditional methods such as the interior point method and the alternating direction method of multipliers (ADMM). Source code for the numerical examples can be found at https://github.com/klkeys/proxdist.…”
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“…The experimental results show that SLR can produce better results in terms of accuracy and completeness. The open-source code of SLR is available at https://github.com/luojunwei/SLR. …”
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“…PhySpeTree is implemented in Python running on modern operating systems (Linux, macOS, and Windows). The source code is freely available with detailed documentation (https://github.com/yangfangs/physpetools).…”
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“…Including the streaming solution, where data pre-processing is considered, SparkGA2 is 51% faster on a 6 node cluster. The source code of SparkGA2 is publicly available at https://github.com/HamidMushtaq/SparkGA2.…”
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“…Using simulated and empirical examples, we demonstrate the robustness of these metrics, and provide source code for calculating them. We find that these augmentations provide a reliable estimate of complementarity and selection effects as long as approximately 50% of the species present in mixture are present in monoculture and these species represent a random subset of the mixture. 4. …”
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