Hello everyone,
I am quite a newbie in bioinformatics, and I have some difficulties using bwa software.
I successfully aligned my dataset to my reference genome. Now, I want to see the impact of the settings on my results, but I don't know how to obtain the number of reads aligned in the .sam file.
Is there a useful trick to obtain the number of reads aligned ?
I have found no clue on the bwa manual, neither in the samtool package and I begin to feel quite helpless ...
Thank you for your answers !
I am quite a newbie in bioinformatics, and I have some difficulties using bwa software.
I successfully aligned my dataset to my reference genome. Now, I want to see the impact of the settings on my results, but I don't know how to obtain the number of reads aligned in the .sam file.
Is there a useful trick to obtain the number of reads aligned ?
I have found no clue on the bwa manual, neither in the samtool package and I begin to feel quite helpless ...
Thank you for your answers !
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