Question: Calculating alignment scores ?
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gravatar for sunnykevin97
19 months ago by
sunnykevin9730
sunnykevin9730 wrote:

Hi, very new to NGS. I used most popular BWA mem for aligning Illumina pair end reads

How to calculate all these parameters for an aligned bam file ? 1) sensitivity 2) match rate and mismatch rate 3) Error rate 4) Precision and Recall

Thanks

ADD COMMENTlink written 19 months ago by sunnykevin9730

Are you after alignment stats? You could try weeSAM - it can provide stats from SAM/BAM alignment files.

More info: http://bioinformatics.cvr.ac.uk/blog/weesam-version-1-5/

ADD REPLYlink modified 19 months ago • written 19 months ago by Sej Modha4.6k
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