Hello, I have read posts regarding how coverage/depth is calculated and [tools][1] you can use however I still have questions remaining. I am trying to …
Hi everyone, I have aligned bam files with the reference genome. All reads are single reads. I want to analyze fragment size using `bamPEFragmentSize`. My …
Hi, I have a question about FLASH parameter. FLASH has a maximum overlap parameter called -M. And parameter recommend this value that calculated from the …
Is it paired or single end ?
from SAM, TLEN gives out average fragment size and try CollectInsertSizeMetrics from PICARD tools and for coverage, use samtools.