Off topic:what does this formula represent?
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6.9 years ago
AAK85 • 0

Hi All I was wondering if anyone can help me with the answer of this formula:

[(number of bases in an interval * number of primary alignments)/ number of reads in an interval] *1e9

[number of bases in an interval * total number of reads)/ number of reads in an interval] * 1e9

I have the $7 and $8 column representing the starting point and ending point of an interval. I have the number of primary alignmets through this command: samtools view -F 0x100 A.bam | awk 'END {printf NR " "}' I have number of reads in an interval by this command : samtoold view -F 0X100 A.bam " chr1:10000-10468" | wc -l Now I want to know what do we get using these data in the formula and what the result of the formula represent? Thank you.

genome sequencing • 1.0k views
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