Question: Pipeline BWA aln+samse
7 months ago by
Mick • 10
Mick • 10 wrote:
Hi I'm trying to pipeline the bwa aln and samse commands.
bwa samse reference.fa <(bwa aln reference.fa test.fq) test.fq > test.sam
But this doesn't:
bwa aln reference.fa test.fq | bwa samse reference.fa test.fq > test.sam
Why is that, what is the difference? Thank you.
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