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  • shurjo
    Senior Member
    • Jan 2009
    • 132
    #1

    SNP caller for RNA-Seq data

    Hello,

    Does anyone have advice on what software suites are currently available to analyze expressed SNPs in Illumina RNA-Seq data? I have been trying ERANGEv3.1, but it is very slow in our NFS-based setup. The only other option I am aware of is CASAVA, for which I believe version 1.6 is a couple of weeks away from release. Are there other options that anyone has used and liked? Any advice would be much appreciated.

    Thanks,

    Shurjo
    Tags: None
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