Question: Which means the default library orientation?
0
gravatar for lee.jingu0626
5.9 years ago by
Korea, Republic Of
lee.jingu062630 wrote:

Hi.

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
1
gravatar for Ashutosh Pandey
5.9 years ago by
Philadelphia
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
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