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  1. 681
    “…OHM is freely available at http://bioinfo.unice.fr/ohm/, with links to the full source code and online help.…”
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    OligoHeatMap (OHM): an online tool to estimate and display hybridizations of oligonucleotides onto DNA sequences
  2. 682
    “…Phaser is a platform for future development of improved phasing methods and their release, including source code, to the crystallographic community.…”
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    Phaser crystallographic software
  3. 683
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    Boolean network simulations for life scientists
  4. 684
    “…Availability: http://www.burkholderia.com. Source code: GNU GPL. Contact: brinkman@sfu.ca.…”
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    The Burkholderia Genome Database: facilitating flexible queries and comparative analyses
  5. 685
    “…Availability: The IslandViewer web service is available at http://www.pathogenomics.sfu.ca/islandviewer and the source code is freely available under the GNU GPL license. …”
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    IslandViewer: an integrated interface for computational identification and visualization of genomic islands
  6. 686
    por Kolbe, Diana L., Eddy, Sean R.
    Publicado 2009
    “…The trCYK algorithm improves alignment accuracy and coverage of sequence fragments of structural RNAs in simulated metagenomic shotgun datasets. Availability: The source code for Infernal 1.0, which includes trCYK, is available at http://infernal.janelia.org Contact: kolbed@janelia.hhmi.org; eddys@janelia.hhmi.org Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    Local RNA structure alignment with incomplete sequence
  7. 687
    “…Availability: Biopython is freely available, with documentation and source code at www.biopython.org under the Biopython license. …”
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    Biopython: freely available Python tools for computational molecular biology and bioinformatics
  8. 688
    “…The Insignia website (http://insignia.cbcb.umd.edu) is free and open to all users and there is no login requirement. In addition, the source code for the computational pipeline is freely available.…”
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    Insignia: a DNA signature search web server for diagnostic assay development
  9. 689
    “…Our OmicBrowse server has been freely available at http://omicspace.riken.jp/ since its launch in 2003. The OmicBrowse source code is downloadable from http://sourceforge.net/projects/omicbrowse/.…”
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    OmicBrowse: a Flash-based high-performance graphics interface for genomic resources
  10. 690
    “…Availability and Implementation:The source code of NTAP is freely available at http://ntap.cbi.pku.edu.cn/. …”
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    NTAP: for NimbleGen tiling array ChIP-chip data analysis
  11. 691
    “…SCIMMkit is applicable to standardized genome-wide SNP arrays and customized multiplexed SNP panels, providing economy, efficiency and flexibility in experimental design. Availability: Source code and documentation are available for noncommercial use at http://droog.gs.washington.edu/scimmkit. …”
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    Targeted interrogation of copy number variation using SCIMMkit
  12. 692
    “…Computer simulation models play an essential role in informing public policy and evaluating pandemic preparedness plans. We have made the source code of this model publicly available to encourage its use and further development.…”
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    FluTE, a Publicly Available Stochastic Influenza Epidemic Simulation Model
  13. 693
    “…Availability: HangOut is implemented in Python 2.3 and runs on all Unix-compatible platforms. The source code is available under the GNU GPL license at http://prodata.swmed.edu/HangOut/ Contact: kim@chop.swmed.edu; grishin@chop.swmed.edu Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    HangOut: generating clean PSI-BLAST profiles for domains with long insertions
  14. 694
    “…SVDetect outputs predicted structural variants in various file formats for appropriate graphical visualization. Availability: Source code and sample data are available at http://svdetect.sourceforge.net/ Contact: svdetect@curie.fr Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data
  15. 695
    “…And, with JRuby, BioRuby runs on the Java Virtual Machine. The source code is available from http://www.bioruby.org/. …”
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    BioRuby: bioinformatics software for the Ruby programming language
  16. 696
    “…PoPoolation is written in Perl and R and it builds on commonly used data formats. Its source code can be downloaded from http://code.google.com/p/popoolation/. …”
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    PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals
  17. 697
    “…Binary install bundles and source code for Cytoscape 2.8 are available for download from http://cytoscape.org. …”
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    Cytoscape 2.8: new features for data integration and network visualization
  18. 698
    “…Our implementation is open source, allowing community-based alterations and improvements. Availability: C++ source code and documentation including compilation instructions are available under GNU licence at http://bgx.org.uk/software/ESS.html. …”
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    ESS++: a C++ objected-oriented algorithm for Bayesian stochastic search model exploration
  19. 699
    “…Availability: Executables, source code, junction libraries, test data and results and the user manual are available from http://grimmond.imb.uq.edu.au/X-MATE/. …”
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    X-MATE: a flexible system for mapping short read data
  20. 700
    por Krueger, Felix, Andrews, Simon R.
    Publicado 2011
    “…Availability and implementation: Bismark is released under the GNU GPLv3+ licence. The source code is freely available from www.bioinformatics.bbsrc.ac.uk/projects/bismark/. …”
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    Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications
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