Bioinformatics 3

  • ArrayStar QSeq

    ArrayStar is software from DNASTAR for analyzing gene expression data. It also provides visualization tools and gene ontology integration. The library's license includes QSeq with ArrayStar for RNA-Seq, ChIP-Seq and miRNA analysis.

    Last modified date: Tue, 12/17/2019 - 3:33pm
  • Cn3D

    Cn3D ("see in 3D") is a helper application for your web browser that allows you to view 3-dimensional structures from NCBI's Entrez Structure database. Cn3D is provided for Windows and Macintosh, and can be compiled on Unix.

    Last modified date: Fri, 04/06/2018 - 11:26am
  • Cytoscape

    Cytoscape is a free, open source visualization tool for modeling complex networks and integrating network points with attribute data.  Cytoscape can create visualizations of a variety of different types of networks, including molecular and genetic, social networks, and semantic Web.  Adding free plugins to Cytoscape also provides functionality including literature mining, network inference, topological clustering, and network comparison. 

    Last modified date: Fri, 03/06/2020 - 9:57am
  • Genomatix Genome Analyzer

    Genomatix Genome Analyzer accepts aligned reads from next generation sequencing experiments: ChIP, RNA, DNA, methylation, and small RNA. It provides visualization and interpretation, including generating and evaluating networks and pathways; performing extended literature searches, and sequence analyses and extraction.

    Last modified date: Tue, 11/05/2019 - 12:22pm
  • GenomeBrowser

    The free Golden Helix GenomeBrowse® tool delivers visualizations of genomic data that give the ability to see what is occurring at each base pair in samples.

    Last modified date: Thu, 03/28/2019 - 11:17am
  • Golden Helix SNP and Variation Suite

    This tool includes SNP Analysis, CNV Analysis, DNA-Seq Analysis, and RNA-Seq Analysis. Additional features are variant maps, Manhattan plots and a Python scripting interface.

    Last modified date: Thu, 03/28/2019 - 11:19am
  • Golden Helix VarSeq

    VarSeq software streamlines the process of annotating and filtering variants obtained from next generation sequencing pipelines to find variants of interest. VarSeq simplifies the user interface and provides a scalable architecture featuring repeatable workflows, note taking and reporting, and filter parameter prototyping.

    Last modified date: Thu, 03/28/2019 - 11:20am
  • JMP (Statistics software)

    JMP is the data analysis tool of choice for hundreds of thousands of scientists, engineers and other data explorers worldwide. Users leverage powerful statistical and analytic capabilities in JMP to discover the unexpected. With JMP you can perform data analysis, data acquisition and cleanup, data visualization, reliability analysis, text exploration, statistical modeling, and it integrates with SAS, MATLAB, and R.

    Last modified date: Fri, 08/27/2021 - 4:46pm
  • Lasergene

    Lasergene provides users a full range of tools for manipulation of sequence data. Lasergene is applicable to both nucleic acid and protein sequences. Example functions operating on sequences are editing, annotating, virtual cloning, primer design, and SNP discovery. Lasergene is available for PC and Mac platforms.

    Last modified date: Fri, 08/27/2021 - 4:48pm
  • SeqMan NGen

    SeqMan NGen is used for assembly of next generation sequencing data, including target resequencing, small genome assembly, and de novo transcriptome workflows. It currently has a limit of around 15 million reads, depending on read length. SeqMan NGen is available for 64-bit PC and Mac platforms.

    Last modified date: Thu, 03/28/2019 - 11:21am