Bam File: Which Column Change When We Flag The Duplicate Reads

Question

[star.bioinformatics]

Hi everyone,

I would like to know which column or parameter change in bam file when we flag the PCR duplicate?

Thank you star

[Andreas]

Did you check the SAM specification? http://samtools.sourceforge.net/SAM1.pdf

Answer 1

[Istvan Albert]

It is flag 1024 as explained here http://picard.sourceforge.net/explain-flags.html