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Combining multiple BAM files for each sample together before running analysis

Hi,

I have around 3-4 BAM files (Run files) for each Sample of the data that I am trying to analyse so far I have run each run file independent of each other now I am at the step where I have to reduce reads. Should I combine all Bam files from each sample before running Reduce Reads and then run Reduce Reads or should I combine the files after running reduce reads

Answers

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