The reads are then mapped to the reference genome using the BWA-MEM algorithm (Langmead, Trapnell et al. 2009; Kim, Pertea et al. 2013).
Step 3 : Genome alignment
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The reads are then mapped to the reference genome using the BWA-MEM algorithm (Langmead, Trapnell et al. 2009; Kim, Pertea et al. 2013).