14 lines
816 B
Plaintext
14 lines
816 B
Plaintext
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 was originally developed as part of 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.
|
|
The project is now maintained by Cole Trapnell's lab at the University of
|
|
Washington.
|