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, 00:30, 21 April 2010
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| : Generate new curves with base quality scores per position. | | : Generate new curves with base quality scores per position. |
| : Calculate the number of mapped bases that reach at least Q20. Potentially, calculate Q20 ''equivalent'' bases by summing the quality scores for bases with base quality >Q20 and dividing the total by 20. | | : Calculate the number of mapped bases that reach at least Q20. Potentially, calculate Q20 ''equivalent'' bases by summing the quality scores for bases with base quality >Q20 and dividing the total by 20. |
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| + | ; Evaluate Coverage as Function of GC Content |
| + | : For each target region, calculate read depth and also the proportion of GC bases in the reference genome. Flag samples where coverage varies strongly as a function of GC content. |
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| == Verify Sample Identities == | | == Verify Sample Identities == |