Question: Mismatch and Indel rate in alignment
0
gravatar for sbdk82
19 months ago by
sbdk8240
United States
sbdk8240 wrote:

I am using BWA to align the raw reads against a contig set. I would like to know the overall mismatch rate as well as indels in the entire alignment (SAM/BAM). I tried various options of samtools/bamtools, but could not able to find this.

bam sam alignment • 947 views
ADD COMMENTlink modified 19 months ago by prasundutta87330 • written 19 months ago by sbdk8240
1
gravatar for prasundutta87
19 months ago by
prasundutta87330
prasundutta87330 wrote:

check this out Mismatch and Indel statistics from BAM/SAM file

ADD COMMENTlink written 19 months ago by prasundutta87330
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