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  1. 1641
    “…We also provide a cross-platform (Linux, OS X, Windows) LGPL 2.0 licensed library libxms for the Perl, Ruby, R and Objective-C programming languages for input and output of XMS formatted annotated sequence motif set files. …”
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    iMotifs: an integrated sequence motif visualization and analysis environment
  2. 1642
    “…The DHGLM was implemented using the ASReml software and the algorithm converged within three minutes on a Linux server. The estimates were similar to those previously obtained using Bayesian methodology, especially the variance components in the residual variance part of the model. …”
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    Genetic heterogeneity of residual variance - estimation of variance components using double hierarchical generalized linear models
  3. 1643
    “…Source code in C++ and Java is provided, as are native binaries for Linux, Mac OS X and Windows systems.…”
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    PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci
  4. 1644
    “…RESULTS: Comparisons of Amazon, Azure, and traditional Linux and Windows environments on common applications have shown encouraging performance and usability comparisons in several important non iterative cases. …”
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    Hybrid cloud and cluster computing paradigms for life science applications
  5. 1645
    “…The application was implemented on an ATI 4770 graphics card in C/C++ and Brook+ in Linux where it was 260 to 760 times faster than existing unoptimized CPU methods. …”
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    GPU-Q-J, a fast method for calculating root mean square deviation (RMSD) after optimal superposition
  6. 1646
    por Rognes, Torbjørn
    Publicado 2011
    “…The software is designed for 64 bit Linux on processors with SSSE3. Source code is available from http://dna.uio.no/swipe/ under the GNU Affero General Public License. …”
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    Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
  7. 1647
    “…The FFAS server, http://ffas.godziklab.org, has no log-in requirement, albeit there is an option to register and store results in individual, password-protected directories. Source code and Linux executables for the FFAS program are available for download from the FFAS server.…”
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    FFAS server: novel features and applications
  8. 1648
    “…The source code of SnowShoes-FTD is provided in two formats: one configured to run on the Sun Grid Engine for parallelization, and the other formatted to run on a single LINUX node. Executables in PERL are available for download from our web site: http://mayoresearch.mayo.edu/mayo/research/biostat/stand-alone-packages.cfm.…”
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    A novel bioinformatics pipeline for identification and characterization of fusion transcripts in breast cancer and normal cell lines
  9. 1649
    “…The package runs under LINUX operating system. Secondary structure predictions are performed using the Vienna RNA package. …”
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    RNAexinv: An extended inverse RNA folding from shape and physical attributes to sequences
  10. 1650
    “…The software is packaged as a virtual appliance which can run on different platforms (e.g. Linux, Windows). MolabIS can be distributed to a wide range of molecular genetics labs since it was developed according to a general data model. …”
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    MolabIS - An integrated information system for storing and managing molecular genetics data
  11. 1651
    “…RESULTS: UPDG represents a generalized framework for data analysis of pooled DNA GWAS with the integration of Unix/Linux shell operations, Perl programs and R scripts. …”
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    UPDG: Utilities package for data analysis of Pooled DNA GWAS
  12. 1652
    “…This page also links to Linux binaries, user manual and tutorial. SINA is made available under a personal use license. …”
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    SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
  13. 1653
    “…Installer packages for Mac OS X, Windows and Linux are available under the LGPL licence from http://mapman.gabipd.org/web/guest/robin.…”
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    RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics
  14. 1654
    “…The framework is open-source (code.google.com/p/milo-lab), implemented in pure Python and tested mainly on Linux. Contact: ron.milo@weizmann.ac.il Supplementary Information: Supplementary data are available at Bioinformatics online.…”
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    An integrated open framework for thermodynamics of reactions that combines accuracy and coverage
  15. 1655
    “…Other applications regard filtering nearly-indentical conformation in selected CASP9 datasets and clustering molecular dynamics snapshots. AVAILABILITY: A linux executable and a Perl script with examples are given in the supplementary material (Additional file 1). …”
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    Fast structure similarity searches among protein models: efficient clustering of protein fragments
  16. 1656
    por Yadav, Gitanjali, Babu, Suresh
    Publicado 2012
    “…Source code and license for the software, designed to work on a Linux-based operating system (OS) can be downloaded at http://www.nipgr.res.in/nexcade_download.html. …”
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    NEXCADE: Perturbation Analysis for Complex Networks
  17. 1657
    “…This program has been tested on Ubuntu Linux and Windows XP/7.…”
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    Genometa - A Fast and Accurate Classifier for Short Metagenomic Shotgun Reads
  18. 1658
    por Ptitsyn, Andrey, Moroz, Leonid L
    Publicado 2012
    “…Due to the large amounts of data the software required a high-performance Linux cluster. The final results can be imported into standard spreadsheet analysis software and queried for the numbers and specific sets of genes absent in specific genomes, uniquely present or shared among different taxons. …”
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    Computational workflow for analysis of gain and loss of genes in distantly related genomes
  19. 1659
    “…CONCLUSION: TranSeqAnnotator has been developed in a Linux cluster, to perform an exhaustive and reliable analysis and provide detailed annotation. …”
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    TranSeqAnnotator: large-scale analysis of transcriptomic data
  20. 1660
    “…Availability: mzMatch.R and mzMatch–ISO are available free of charge from http://mzmatch.sourceforge.net and can be used on Linux and Windows platforms running the latest version of R. …”
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    mzMatch–ISO: an R tool for the annotation and relative quantification of isotope-labelled mass spectrometry data
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