Use 454 data to aid Illumina assembly?

[nangillala]

Hi there,
I'm working on an eukaryot and we have Illumina and 454 data.
After many hybrid assembly approaches a "simple" Allpaths-LG assembly of the Illumina data yielded the best results.
I also tried (hybrid) approaches with Newbler, CLC bio's assembly cell, SOAPdenovo and MIRA.

After the finished Allpaths-LG assembly I used a script that mapped the 454 data on the scaffolds and looked for overlaps on either end of a gap (a stretch of Ns). This gap was closed or shortened, whenever possible.
The results were better, but only very marginal.

Any other ideas how I could improve the result and find a good way of incorporating the 454 data?

Thanks

[nangillala]

Any idea on this topic?

Thanks

[westerman]

My experience is over a year old, but I never had much luck incorporating 454 data into Illumina data. Oh, it can be done and the results might be a tiny bit better but generally it isn't worth the effort. It is possible that other people have had the same experience which might explain the lack of responses to your post.

[nangillala]

Hm,
maybe I'm just out of luck. But I can't seem to find a good way of incorporating the data.
Thanks for your reply though, Rick.