Very quick question:
I am using this method to calculate coverage:
Coverage = N_reads * (average_read_length / haploid_genome_size)
when calculating physical coverage for paired-ends, is "average_read_length" the average of the DNA fragment lengths (length of read1 + insert length + length of read2) or is it the length of the reads (read1+read2)
I think it's the fragment length/template length, right?