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Old 01-22-2013, 12:41 PM   #1
ccstaats
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Location: Porto Alegre

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Default Read counts in SOAPdenovotrans output

Hello all
I am working with a few libraries of small RNAs (20 - 200 nt) from yeast.
So, I want to do a functional characterization of the RNAs in such libraries.
For this, I am building contigs and then I will conduct analysis using the RFAM database.
My question is, for quantitative purposes, how can I determine the read count in each contig? I visit the SOAPdenovo trans site and cannot find the answer for this. Visual inspection of the output files did not give a clue about the number of reads in each config.
Does anyone is familiar with this?
Thank you.
Charley
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