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  • super0925
    Senior Member
    • Feb 2014
    • 206
    #1

    RNA-seq pipeline on Ion-Proton data

    Hi I am a rookie bioinformatics who will process the rna-seq from Ion-proton(Single-ended).
    The pipeline for processing which I know until now is
    Bowtie, Tophat, Cufflinks, and cummeRbund for RNA-seq alignment, assembly, DE analysis, and .visualization.
    Any other options?
    Or What is this advantage or disadvantage of this pipeline?
    Thank you!
    Last edited by super0925; 02-14-2014, 07:39 AM.
    Tags: None
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