query about bam

[nordhuang]

When you use bwa to generate bam input for msisensor, what is your specific bwa command? bwa mem or bwa mem -M or bwa aln or other specific parameters? Thanks very much.

[Beifang]

Hi, there is no specific requirements for MSIsensor input bams. So, you can use either "bwa aln" or "bwa mem" parameters based on your sequencing data to generate aligned input bams, and then feed them to MSIsensor. thx, -beifang

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-- Beifang Niu Department of High Performance Computing Technology and Application Development Computer Network Information Center (CNIC), Chinese Academy of Sciences (CAS) Tel：+86 010-58812132