Dear All
I am using ABySS to generate contigs from human reads. I now want to make scaffolds from it. I used SSPACE but did not get as good result as wit E.coli reads. Or may be I have not yet explored fully to how to optimize use of SSPACE, though I did try changing its parameters a bit.
Can the scaffolder inbuilt in SOAPdenovo scaff be used to make scaffolds from contigs generated from ABySS ? Has anyone tried it ? What are the other option tools for scaffolding ?
Aby
I am using ABySS to generate contigs from human reads. I now want to make scaffolds from it. I used SSPACE but did not get as good result as wit E.coli reads. Or may be I have not yet explored fully to how to optimize use of SSPACE, though I did try changing its parameters a bit.
Can the scaffolder inbuilt in SOAPdenovo scaff be used to make scaffolds from contigs generated from ABySS ? Has anyone tried it ? What are the other option tools for scaffolding ?
Aby
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