BLAST unmapped reads from BAM
Hey, I have sequenced a recombinant plasmid and I am trying to characterize the insert sequences that have not aligned to the reference. I have generated a BAM file with the unmapped sequences and now I am trying to BLAST these in various databases to identify the unmapped sequences.
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Thái Hoàng •
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ummamd •
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What is your question?
Assuming you are studying microbes. Maybe you can try de novo assembly and blast the contig to NCBI or other public database.
Velvetassembler source code: https://github.com/dzerbino/velvet