Hello,
I'm mapping paired-end reads coming from Illumina HiScanSQ using BWA
and I'm wondering if BWA correctly recognizes the Fastq sequence identifier line as
used by Casava 1.8.
For instance, if I have the following line in my Fastq
@EAS139:136:FC706VJ:2:2104:15343:197393 1:Y:18:ATCACG
do I have to change it to, say,
@EAS139:136:FC706VJ:2:2104:15343:197393#1
so that BWA knows that this read is the first one in a read pair.
The version of BWA is bwa-0.5.9rc1
Thanks in advance !
I'm mapping paired-end reads coming from Illumina HiScanSQ using BWA
and I'm wondering if BWA correctly recognizes the Fastq sequence identifier line as
used by Casava 1.8.
For instance, if I have the following line in my Fastq
@EAS139:136:FC706VJ:2:2104:15343:197393 1:Y:18:ATCACG
do I have to change it to, say,
@EAS139:136:FC706VJ:2:2104:15343:197393#1
so that BWA knows that this read is the first one in a read pair.
The version of BWA is bwa-0.5.9rc1
Thanks in advance !
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