spliced alignments viewers?

[darked89]

I got a bunch of Illumina lanes from RNA-Seq experiment and corresponding draft genome sequence. There are few alignment programs I can use which can handle splicing:

* Tophat [http://tophat.cbcb.umd.edu/]
* GEM [http://gemlibrary.sourceforge.net]
* SOAPals [http://soap.genomics.org.cn/soapals.html]

So far I am aware of only one program able to display spliced alignments (SeqMonk from http://www.bioinformatics.bbsrc.ac.uk/projects/seqmonk/) but it does not have sequence view.

My question: are there any other programs for next gen spliced mapping visualization? If yes, which input formats they use?

[malcook]

IGV displays the spliced alignments produced by Tophat just fine.

[darked89]

IGV displays the spliced alignments produced by Tophat just fine.

Thank you,now it works for me as well.

[dmarsh]

Spliced alignments from TopHat

We routinely use Tablet for this.

[darked89]

We routinely use Tablet for this.

Thanks, works as well, albeit with a scary looking strings of Ns joining two mapped parts of one read.
Bad thing: no gene models track from gff.