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Contents of README:Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples. It accepts aligned RNA-Seq reads and assembles the alignments into a parsimonious set of transcripts. Cufflinks then estimates the relative abundances of these transcripts based on how many reads support each one, taking into account biases in library preparation protocols. Cufflinks is a collaborative effort between the Laboratory for Mathematical and Computational Biology, led by Lior Pachter at UC Berkeley, Steven Salzberg's computational genomics group at the Institute of Genetic Medicine at Johns Hopkins University, and Barbara Wold's lab at Caltech. Reference: Ali Mortazavi, Brian A Williams, Kenneth McCue, Lorian Schaeffer and Barbara Wold, "Mapping and quantifying mammalian transcriptomes by RNA-Seq", Nature Methods, volume 5, 621 - 628 (2008) |
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Parent Directory - README 14-Dec-2013 18:05 898 References 14-Dec-2013 18:05 1.5K cufflinks.SlackBuild 29-May-2014 01:38 3.2K cufflinks.info 20-Jun-2015 07:01 341 slack-desc 29-May-2014 01:38 1.0K
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