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-   -   suitable aligner for human RNA-seq (http://seqanswers.com/forums/showthread.php?t=81918)

yueli 04-19-2018 06:42 AM

suitable aligner for human RNA-seq
 
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Hello,

Human RNA-seq dataset was generated from Illumina HiSeq 3000 with 2X100 cycles run.

The first step is making alignment of the reads to the human genome. These are many aligner, such as: Bowtie, GASSST, PASS, SOAP, BOAT. Each aligners has different performs in different kinds of data.

Which is the best suitable aligner for RNA-seq data?

Thank you in advance for great help!

Sincerely,

Yue

colindaven 05-02-2018 04:01 AM

STAR or Hisat2, and NOT Tophat2


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