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Revision as of 00:30, 21 April 2010
, 00:30, 21 April 2010→Read Mapping
: 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.
; 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.
== Verify Sample Identities ==
== Verify Sample Identities ==
