I am using samtools mpileup on my data.
I have used bwa for alignment of my NGS whole genome:
bwa sampe ref.fa read?.sai read?.fq.gz > aln.sam
After conversion to bam, and sorting using samtools I have used mpileup.
But it is not giving the desired output. This is the output i get.
[mpileup] 1 samples in 1 input files
<mpileup> Set max per-file depth to 8000
[afs] 0:0.000
Thanks in advance
I have used bwa for alignment of my NGS whole genome:
bwa sampe ref.fa read?.sai read?.fq.gz > aln.sam
After conversion to bam, and sorting using samtools I have used mpileup.
But it is not giving the desired output. This is the output i get.
[mpileup] 1 samples in 1 input files
<mpileup> Set max per-file depth to 8000
[afs] 0:0.000
Thanks in advance
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