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  1. 1381
    por Ibarra, Ignacio L., Melo, Francisco
    Publicado 2010
    “…The software is written in the Java computer language, thus it runs on all major platforms and operating systems including Windows, Mac OS X and LINUX. Contact: All inquiries or comments about this software should be directed to Francisco Melo at fmelo@bio.puc.cl…”
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    Interactive software tool to comprehend the calculation of optimal sequence alignments with dynamic programming
  2. 1382
    por Barbarini, Nicola, Magni, Paolo
    Publicado 2010
    “…Executable files of MassSpec, a MATLAB implementation of the peak list extraction procedure for Windows and Linux systems, can be downloaded free of charge for nonprofit institutions from the following web site: http://aimed11.unipv.it/MassSpec…”
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    Accurate peak list extraction from proteomic mass spectra for identification and profiling studies
  3. 1383
    “…The readDepth package runs on Linux and MacOSX, is released under the Apache 2.0 license, and is available at http://code.google.com/p/readdepth/.…”
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    ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads
  4. 1384
    por Shimizu, Kana, Tsuda, Koji
    Publicado 2011
    “…Availability: Executable binary files and C++ libraries are available at http://www.cbrc.jp/~shimizu/slidesort/ for Linux and Windows. Contact: slidesort@m.aist.go.jp; shimizu-kana@aist.go.jp Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    SlideSort: all pairs similarity search for short reads
  5. 1385
    por Hao, Xiaolin, Jiang, Rui, Chen, Ting
    Publicado 2011
    “…Availability and Implementation: Source code freely available at the following URL: http://code.google.com/p/crop-tingchenlab/, implemented in C++ and supported on Linux and MS Windows. Contact: tingchen@usc.edu Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering
  6. 1386
    “…CONTIGuator is a Python script for Linux environments and can be used on normal desktop machines and can be downloaded from http://contiguator.sourceforge.net.…”
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    CONTIGuator: a bacterial genomes finishing tool for structural insights on draft genomes
  7. 1387
    “…They are implemented in Java and supported on MS Windows, Linux and OS X. Contact: duccio.cavalieri@unifi.it; sorin@wayne.edu Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    The Biological Connection Markup Language: a SBGN-compliant format for visualization, filtering and analysis of biological pathways
  8. 1388
    “…Requires 32 or 64-bit Linux system (tested on Fedora Core 8,10,11 and Ubuntu 10), 2.5*≤ Python <3.0*, MySQL server >5.0, 60 GB available hard disk space (50 MB for software and data files, 40 GB for MySQL database dump when uncompressed), 2 GB of RAM. …”
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    CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer
  9. 1389
    “…It took 295 seconds to estimate variance components and 70 seconds to perform the genome scan on an Linux machine equipped with a 2.40GHz Intel(R) Core(TM)2 Quad CPU. …”
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    QTLRel: an R Package for Genome-wide Association Studies in which Relatedness is a Concern
  10. 1390
    “…MoleCoolQt is written in C++ using the Qt4 library, has a user-friendly graphical user interface, and is available for several flavors of Linux, Windows and MacOS.…”
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    MoleCoolQt – a molecule viewer for charge-density research
  11. 1391
    por Kehr, Birte, Weese, David, Reinert, Knut
    Publicado 2011
    “…Binaries are freely available for Linux, Windows, and Mac OS X at http://www.seqan.de/projects/stellar. …”
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    STELLAR: fast and exact local alignments
  12. 1392
    “…Availability: xQTL workbench runs on all common platforms, including Linux, Mac OS X and Windows. An online demo system, installation guide, tutorials, software and source code are available under the LGPL3 license from http://www.xqtl.org. …”
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    xQTL workbench: a scalable web environment for multi-level QTL analysis
  13. 1393
    “…The TINA Manual Landmark Tool runs under Linux and can be obtained for free from http://www.tina-vision.net/tarballs/.…”
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    TINA manual landmarking tool: software for the precise digitization of 3D landmarks
  14. 1394
    por Faust, Gregory G., Hall, Ira M.
    Publicado 2012
    “…Availability: YAHA is currently supported on 64-bit Linux systems. Binaries and sample data are freely available for download from http://faculty.virginia.edu/irahall/YAHA. …”
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    YAHA: fast and flexible long-read alignment with optimal breakpoint detection
  15. 1395
    “…A standalone version of CS-AMPPred is available for download at <http://sourceforge.net/projects/csamppred/> and runs on any Linux machine.…”
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    CS-AMPPred: An Updated SVM Model for Antimicrobial Activity Prediction in Cysteine-Stabilized Peptides
  16. 1396
    “…Availability and implementation: 13CFLUX2 is implemented in C++ (ISO/IEC 14882 standard) with Java and Python add-ons to run under Linux/Unix. A demo version and binaries are available at www.13cflux.net. …”
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    13CFLUX2—high-performance software suite for (13)C-metabolic flux analysis
  17. 1397
    “…Ig-HTS-Cleaner and Ig-Indel-Identifier have been implemented in Java and saved as executable JAR files, supported on Linux and MS Windows. No special requirements are needed in order to run the programs, except for correctly constructing the input files as explained in the text. …”
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    Automated cleaning and pre-processing of immunoglobulin gene sequences from high-throughput sequencing
  18. 1398
    “…Pre-compiled packages for the installation on Debian- and Redhat-based Linux distributions, as well as Windows operating systems, along with example data, are provided for download at http://ntfd.mit.edu/. …”
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    NTFD—a stand-alone application for the non-targeted detection of stable isotope-labeled compounds in GC/MS data
  19. 1399
    por Fang, Hai, Gough, Julian
    Publicado 2014
    “…This package can run on Windows, Mac and Linux, and is freely available together with many tutorials on featuring real examples at http://supfam.org/supraHex.…”
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    supraHex: An R/Bioconductor package for tabular omics data analysis using a supra-hexagonal map()
  20. 1400
    “…Availability and implementation: Java executable available for download at http://www.sourceforge.net/p/mitsu-motif/, supported on Linux/OS X. Contact: a.m.kilpatrick@sms.ed.ac.uk…”
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    Stochastic EM-based TFBS motif discovery with MITSU
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