looking for isoforms

[papori]

Hey all,
i did de novo assembly for transcriptome . Now i want to look for isoforms .
do anyone familiar with software that doing it?

what are the automatics analysis tools for de novo assembly?
where to look for?

thanks!

[tir_al]

You could try the "Trinity pipeline". It does transcriptome reconstruction without the reference genome.

http://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.1883.html

Best regards.

[papori]

i used Trinity for the assembly...