slackbuilds/academic/tophat/References

Trapnell C, Pachter L, Salzberg SL. TopHat: discovering splice
junctions with RNA-Seq. Bioinformatics doi:10.1093/bioinformatics/btp120

Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-
efficient alignment of short DNA sequences to the human genome. Genome
Biology 10:R25.

Kim D and Salzberg SL. TopHat-Fusion: an algorithm for discovery of
novel fusion transcripts. Genome Biology 2011, 12:R72

Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL.
TopHat2: accurate alignment of transcriptomes in the presence of
insertions, deletions and gene fusions. . Genome Biology 2011, 14:R36