academic/cufflinks: Added (reference-guided assembler for RNA-Seq).

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>

1 files changed, 17 insertions, 0 deletions

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+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)