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Forum: De novo discovery 03-15-2011, 09:01 PM
Replies: 16
Views: 13,728
Posted By waterboy
The read length is 50bp. yes I trimmed the reads...

The read length is 50bp. yes I trimmed the reads before running velvet and oases.
The kmer length that we prefer is 25-31. Even after doing that only 2806127 reads out of 31405877 filtered reads...
Forum: De novo discovery 03-14-2011, 09:10 PM
Replies: 16
Views: 13,728
Posted By waterboy
Hello, I am doing transcriptome de novo...

Hello,
I am doing transcriptome de novo assembly on SOLiD data, for that I am running velvet and oases pipeline, in the assembly outoff 31 million reads only 1 million reads taking part in...
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