Supported Applications

Cufflinks

  • Description

    a reference-guided assembler that assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples.

  • Primary Citation*

    C. Trapnell, B. A. Williams, G. Pertea, A. M. Mortazavi, G. Kwan, M. J. van Baren, S. L. Salzberg, B. Wold, and L. Pachter. 2010. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature Biotechnology. Nature. 28(5): 511-515.


    • *Full citation information available through

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