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Old 08-30-2010, 03:16 AM   #1
Location: Uppsala, Sweden

Join Date: Mar 2010
Posts: 23
Question Chromosome assembly with next-gen data?

Hey all,

I've just seen that the Turkey and Panda genomes (assembled from 454+Illumina reads and only Illumina reads respectively) now are up on Pre Ensembl with complete chromosomes.

The Panda assembly consists of over 80,000 scaffolds, and I would very much like to know how they've assigned each scaffold to a certain chromosome, and also how they can know the internal order of the scaffolds in each chromosome. Does anyone have a clue??

I'm assembling a large genome myself, but with 100,000 scaffolds and a linkage map with only 200 sites I have no idea how to get full chromosome sequences..

Any help would be appreciated!
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