Question: bam file to bed fie
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GenoMax ♦ 94k wrote:
You won't know the exact boundaries since some reads will extend beyond the targeted region(s). But you should get a rough idea.
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You can parse the BAM file and look at the POS/TLEN fields. If this is a common genome, with a BED annotation file available, then you could use coverageBED from BEDTools to get a rough idea of what regions are covered.
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