Question: Difference between proper paired reads and mapped and paired reads
gravatar for bio_student
5 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?


assembly • 323 views
ADD COMMENTlink modified 5 months ago by Pierre Lindenbaum118k • written 5 months ago by bio_student0
gravatar for Pierre Lindenbaum
5 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum118k 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 5 months ago by Pierre Lindenbaum118k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1371 users visited in the last hour