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16 lines
868 B
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16 lines
868 B
Plaintext
Cufflinks assembles transcripts, estimates their abundances, and tests for
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differential expression and regulation in RNA-Seq samples. It accepts aligned
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RNA-Seq reads and assembles the alignments into a parsimonious set of
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transcripts. Cufflinks then estimates the relative abundances of these
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transcripts based on how many reads support each one, taking into account biases
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in library preparation protocols.
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Cufflinks was originally developed as part of a collaborative effort between the
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Laboratory for Mathematical and Computational Biology, led by Lior Pachter at UC
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Berkeley, Steven Salzberg's computational genomics group at the Institute of
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Genetic Medicine at Johns Hopkins University, and Barbara Wold's lab at Caltech.
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The project is now maintained by Cole Trapnell's lab at the University of
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Washington.
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WWW: http://cole-trapnell-lab.github.io/cufflinks/
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