Hi all,
I aligned paired end exome seq R1 and R2 fastq files separately as single end reads. Then I combined two resultant bam files using samtools cat and then sorted them by sequence.
However, this would obviously not enable pairing / not change the flags for paired reads.
Any suggestions how to enable pairing of the reads in the file ?
I aligned paired end exome seq R1 and R2 fastq files separately as single end reads. Then I combined two resultant bam files using samtools cat and then sorted them by sequence.
However, this would obviously not enable pairing / not change the flags for paired reads.
Any suggestions how to enable pairing of the reads in the file ?
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