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The script is currently trying to calculate the average ErrorRate over the first 35 bases of each read. The SQL queries as written don't calculate the correct value.
Regardless, we would rather track the average ErrorRate over the entire read (not just the first 35 bases)
I believe the following SQL will do that:
READ 1
$query = "SELECT AVG(errorRate) from specimen.MiSeqQC_ErrorMetrics WHERE runID LIKE ". $RunID." AND ". $read1
READ 2
$query = "SELECT AVG(errorRate) from specimen.MiSeqQC_ErrorMetrics WHERE runID LIKE ". $RunID." AND ". $read2
see lines 59-62 for the definitions of $read1 and $read2
The text was updated successfully, but these errors were encountered:
On Lines 201-222 of upload_summary_values.pl:
The script is currently trying to calculate the average ErrorRate over the first 35 bases of each read. The SQL queries as written don't calculate the correct value.
Regardless, we would rather track the average ErrorRate over the entire read (not just the first 35 bases)
I believe the following SQL will do that:
READ 1
$query = "SELECT AVG(errorRate) from specimen.MiSeqQC_ErrorMetrics WHERE runID LIKE ". $RunID." AND ". $read1
READ 2
$query = "SELECT AVG(errorRate) from specimen.MiSeqQC_ErrorMetrics WHERE runID LIKE ". $RunID." AND ". $read2
see lines 59-62 for the definitions of $read1 and $read2
The text was updated successfully, but these errors were encountered: