Hi,
I am trying to extract mate reads out of a sam file with following flags: view -b -S -f 8 -F 4 output.sam > mate.bam
and then with bam2fastq: bam2fastq -o mate#.fastq -f mate.bam
Unfortunetly i get this error message:
This looks like paired data from lane 0.
Output will be in unmapped_1.fastq and unmapped_2.fastq
1 sequences in the BAM file
1 sequences exported
WARNING: 1 reads could not be matched to a mate and were not exported
Probably someone can help me out?
Thanks,
TOmi
I am trying to extract mate reads out of a sam file with following flags: view -b -S -f 8 -F 4 output.sam > mate.bam
and then with bam2fastq: bam2fastq -o mate#.fastq -f mate.bam
Unfortunetly i get this error message:
This looks like paired data from lane 0.
Output will be in unmapped_1.fastq and unmapped_2.fastq
1 sequences in the BAM file
1 sequences exported
WARNING: 1 reads could not be matched to a mate and were not exported
Probably someone can help me out?
Thanks,
TOmi
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