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Old 11-15-2011, 12:32 AM   #1
icebreaker
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Location: india

Join Date: Oct 2011
Posts: 5
Default query on various coverage terms

Hi ,

I am quite confused by various terms of 'coverage'. Could i please know what actually does Coverage, Base coverage,coverage of the contig, Depth of the coverage, read depth coverage, Sequencing depth means.

Also from the velvet assemblies i found that the coverage is Kmer coverage.
For eg:

>NODE_6_length_310_cov_23.780645

From the manual i calculated by substituting in the formula: C= (Ck*L)/(L-k+1)
and obtained the 'C' value and found the average 'C'- value to be >1200. Is this feasible?


Moreover, How could i know the reference genome size?

Thank you for your answers.
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