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Old 03-23-2018, 11:58 PM   #1
unsolvedquestions
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Location: India

Join Date: Mar 2018
Posts: 1
Default Urgent help needed

Hi everyone. I am sorry for asking a question that may sound very trivial to many of you but I am new to this field and do not have a bioinformatics background. Actually WES was done for 4 tumor samples which showed a mapping rate of 70-85% after alignment with BWA. Now I am reading everywhere that Mapping rate must be >90% but I am getting a low mapping rate. I want to know what can be the possible reasons for getting such low mapping rate and can we proceed with variant calling with such low mapping rate. Will the variant calling data be acceptable?

Thank you
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