Hi,
I'm trying to work with the BWA, but I'm having a problem.
After doing the alignment with BWA, I need to pass the generated file to fasta format, so I can make a blast.
But when I do this, apparently the fasta file generated comter seems only the reads. Lose alignment. Anyone know what's happening?
I use te samtools to pass the file in sam format for bam format, and after I use the blast2fastx to convert the alignment in bam format to fasta format.
I don't know if have some influence, but I'm work with the paired-end alignment.
I'm trying to work with the BWA, but I'm having a problem.
After doing the alignment with BWA, I need to pass the generated file to fasta format, so I can make a blast.
But when I do this, apparently the fasta file generated comter seems only the reads. Lose alignment. Anyone know what's happening?
I use te samtools to pass the file in sam format for bam format, and after I use the blast2fastx to convert the alignment in bam format to fasta format.
I don't know if have some influence, but I'm work with the paired-end alignment.
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