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  • kch
    replied
    At the very bottom of the TopHat manual under the heading TopHat Output, links are provided to the specification of each output file.

    HTH

    Leave a comment:


  • Gus
    started a topic Comprehensive TopHat manual?

    Comprehensive TopHat manual?

    The manual on the website seems to leave a bit to be desired. It great for actually getting a run to produce results but does not seem to explain all the possible auxiliary scripts that may be included or explain how to process the results with much more detail than "You can load them into UCSC GBrowser".

    Do any of you know of a place that actually lists the column names/classifications for the output files?

    Thanks.

    Gus

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