I mean, how do I see if two reads come from the same sample? The manual only tells me that 2 reads having identical QNAME are paired-end, right? Could someone tell how to read QNAME, above all it's such a long string of words that must tell something other than that...
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Often the QNAME is info about the instrument and the date of run, and the lane and tile and xy coordinates. The read group might tell you the sample name. That might be stored in an NM tag in the .sam file, or in the @RG header of the .sam file
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Originally posted by swbarnes2 View PostOften the QNAME is info about the instrument and the date of run, and the lane and tile and xy coordinates. The read group might tell you the sample name. That might be stored in an NM tag in the .sam file, or in the @RG header of the .sam file
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Originally posted by swbarnes2 View PostRight, typo on my part. The SM tag might contain a sample name.
If it is not, how is that usually done? Is it customary that I ligate an adaptor to each sample origin, pool them, sequence, and look at the beginning of each read to see which origin of sample it came from?
Lots of thx!!!
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