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  • 4D45
    Junior Member
    • Apr 2016
    • 1
    #1

    STAR-Aligner different Ensembl-genome- and -gtf-release

    Hi there,

    I am using STAR-Aligner to align my RNASeq Data. To generate the genome I have given STAR an Ensembl GRCh38 genome-FastaFile and gtf-File. Now I noticed, that my genome is release 77 (because this was recommended in the STAR manual) and my gtf is release 82. Will this different releases be a problem in further analysis? In detail:
    - Problem for Alignment?
    - Problem for counting reads intern in Star-Aligner with htseq during the Alignment step?
    - Problem for counting reads extern? (and which release should be used here?)
    - Problem for counting Splice Junctions intern in Star-Aligner?

    Thanks for your help
    Tags: None
    • dpryan
      Devon Ryan
      • Jul 2011
      • 3478
      #2
      It'll work fine.

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