Representative Transcripts

[shanebrubaker]

Hi, I want to take transcriptomes from different time points and pick the best or longest representative examples for given genes to create a collapsed set of transcripts (to use as a reference) and to thereby reduce complexity.

Does anyone know of good software for doing this?

Thanks,
Shane

[chadn737]

Are you working in a non-model organism?

[idonaldson]

For certain genes the job has already been done for you thanks to UCSC canonical genes. Some explanation below:

http://www.biostars.org/p/19029/

http://blog.openhelix.eu/?p=6097