Hi all,
I used bwa mem to align my quality trimmed reads to a reference. I have 5M reads to align but in the sam file there are only 3M...
2 results in 0.0023 seconds.
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read number in fastq does not match bwa-mem produced sam file
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samtools rmdup leaves unpaired mates
I have 100 bp paired end illumina hiseq reads, which I mapped with bwa-mem, and then used samtools to sort and rmdups. I am running into errors at the...
