Question: Difference between proper paired reads and mapped and paired reads
gravatar for bio_student
11 months ago by
bio_student0 wrote:


I am using samtools stats to get some information about my genome. Can anybody explain to me the difference between reads mapped and paired and reads properly paired?


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ADD COMMENTlink modified 11 months ago by Pierre Lindenbaum122k • written 11 months ago by bio_student0
gravatar for Pierre Lindenbaum
11 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum122k wrote:

reads mapped and paired

the input of the mapping was a set of two fastq files R1.fq and R2.fq from a paired end experiment

reads properly paired?

reads R1 and R2 from the same segment are mapped on the same chromosome, at a good expected distance with the correct directions. see from slide 30.

ADD COMMENTlink written 11 months ago by Pierre Lindenbaum122k
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