Hi all,
I want to count the total number of mapped reads onto the reference genome.
I have .sai and .sam files. Which of these files can be used to do so?
I have low computing power, thus currently using only bwa and samtools. Please suggest me some tool to count number of mapped/unmapped reads after I align all the reads to reference genome.
Best,
I want to count the total number of mapped reads onto the reference genome.
I have .sai and .sam files. Which of these files can be used to do so?
I have low computing power, thus currently using only bwa and samtools. Please suggest me some tool to count number of mapped/unmapped reads after I align all the reads to reference genome.
Best,
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