Hi,
We have an existing assembly that we'd like to scaffold using BAC end sequences. Since we've had good experiences with Newbler, we thought we could try to use that. However, Newbler (at least version 2.8) doesn't seem to allow us to open an *existing* (non 454) assembly and combine it with the BES... Also, it doesn't seem to have a way to specify the insert size (and our contigs are much shorter than BACs).
a) Can Newbler do this kind of job?
b) Which other scaffolders would you recommend?
Cheers,
We have an existing assembly that we'd like to scaffold using BAC end sequences. Since we've had good experiences with Newbler, we thought we could try to use that. However, Newbler (at least version 2.8) doesn't seem to allow us to open an *existing* (non 454) assembly and combine it with the BES... Also, it doesn't seem to have a way to specify the insert size (and our contigs are much shorter than BACs).
a) Can Newbler do this kind of job?
b) Which other scaffolders would you recommend?
Cheers,
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