Question: Which means the default library orientation?
gravatar for lee.jingu0626
5.9 years ago by
Korea, Republic Of
lee.jingu062630 wrote:


I have one question when I study about DELLY paper.

(DELLY: structural variant discovery by integrated paired-end and split-read analysis.)

In paper, DELLY(tool of detecting Structural variation) records non-mapped read one alignment direction, which can be inferred from the mapped read and the default library orientation.

I wonder the default library orientation. Is it the default value in DELLY tool or commonly used for detecting SV?

sequencing next-gen • 1.7k views
ADD COMMENTlink modified 5.9 years ago by Ashutosh Pandey12k • written 5.9 years ago by lee.jingu062630
gravatar for Ashutosh Pandey
5.9 years ago by
Ashutosh Pandey12k wrote:

DELLY computes the default read-pair orientation and the paired insert size using the input BAM file. In paired-end libraries, the two mates can come from the opposite strand (Illumina) or the same strand (SOLiD). DELLY will determine the read-pair orientation and paired insert size for you and you dont have to worry about providing these information.  It will then identify discordantly mapped read-pairs that either have an anomalous orientation or an insert size greater than the expected range to detect SVs.

ADD COMMENTlink written 5.9 years ago by Ashutosh Pandey12k
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: 1190 users visited in the last hour