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  • crusty
    Junior Member
    • Feb 2015
    • 2
    #1

    What is the best clustering/visualization tools for RSEM data points?

    Hi, I am looking for simple tools to cluster/visualize transcriptomics data sets that are provided as a list of genes (contigs) with RSEM values assigned for each condition and put together as a table in the Excel spreadsheet. The laptop runs latest windows and doesn't have any bioinformatics packages installed.
    I would appreciate any help,
    Thanks
    Tags: None
    • sarvidsson
      Senior Member
      • Jan 2015
      • 137
      #2
      I'm not aware of any free software that visualizes RNA-Seq counts - if you e.g. run the DESeq2 vst or rlog transform (http://www.bioconductor.org/packages....pdf#section.2) on the count tables, you could use good old MeV (http://www.tm4.org/mev.html)...

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        • crusty
          Junior Member
          • Feb 2015
          • 2
          #3
          MeV worked beautifully! Thanks, Sarvidsson!

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