Difference between revisions of "What does Cuffdiff do?"

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(Created page with "The cutdiff function finds any significant changes in transcript expression, splicing, and promoter use.")
 
 
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The cutdiff function finds any significant changes in transcript expression, splicing, and promoter use.
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The cutdiff function finds any significant changes in transcript expression, splicing, and promoter use (Trapnell et al., 2010). Cuttdiff is an algorithm for transcript assembly that uses a statistical model to produce estimates of isoforms (functionally similar proteins with different amino acids) abundances.
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Where we compare the abundances of 2 samples and tell us which RNA reads are different. Ultimately gives us differential expression.
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References:
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Trapnell C. et al., 2010. Transcript assembly and quantification by RNA-Seq revels annotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 28(5):511-515.  doi:10.1038/nbt.1621

Latest revision as of 16:01, 6 February 2018

The cutdiff function finds any significant changes in transcript expression, splicing, and promoter use (Trapnell et al., 2010). Cuttdiff is an algorithm for transcript assembly that uses a statistical model to produce estimates of isoforms (functionally similar proteins with different amino acids) abundances.

Where we compare the abundances of 2 samples and tell us which RNA reads are different. Ultimately gives us differential expression.


References: Trapnell C. et al., 2010. Transcript assembly and quantification by RNA-Seq revels annotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 28(5):511-515. doi:10.1038/nbt.1621