Has anyone tried Junction Walk?

[dvanic]

Hi! I'm currently debating on which software to use to assemble some novel transcripts from human 100bp paired-end Illumina RNA-Seq data, and was curious if anyone has tried using Junction Walk and the overall approach outlined in http://www.plosone.org/article/info%...l.pone.0031440 to conduct novel trascript annotation??? Trinity/Oases seem a bit overkill for the task...

_
PS I've run Tophat/Cufflinks already, so I'm looking for an alternative.

[dvanic]

No one ((
?

[Kennels]

You could check out Trans-Abyss to see if it suits your needs. It depends on the Abyss assembler. You could then use RSEM software to get an idea of the transcript expression levels.