Cufflinks: Difference between revisions
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Cufflinks is a collaborative effort between the [http://bio.math.berkeley.edu/ Laboratory for Mathematical and Computational Biology], led by Lior Pachter at UC Berkeley, Steven Salzberg's [http://genomics.jhu.edu/ computational genomics group] at the Institute of Genetic Medicine at Johns Hopkins University, and Barbara Wold's lab at Caltech. | Cufflinks is a collaborative effort between the [http://bio.math.berkeley.edu/ Laboratory for Mathematical and Computational Biology], led by Lior Pachter at UC Berkeley, Steven Salzberg's [http://genomics.jhu.edu/ computational genomics group] at the Institute of Genetic Medicine at Johns Hopkins University, and Barbara Wold's lab at Caltech. | ||
'''Project website:''' http://cufflinks.cbcb.umd.edu/ | |||
The following Modules file should be loaded for this package: | The following Modules file should be loaded for this package: | ||
Revision as of 18:13, 2 April 2012
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Cufflinksassembles 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.
Project website: http://cufflinks.cbcb.umd.edu/
The following Modules file should be loaded for this package:
module load cufflinks/cufflinks