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Search: Posts Made By: Xian
Forum: Bioinformatics 12-22-2010, 12:38 PM
Replies: 6
Views: 4,362
Posted By Xian
pickw please correct me if I'm wrong. ...

pickw please correct me if I'm wrong.

csoong, each sv call in breakdancer is decided by paired nodes. Each node contains reads within a particular region of the sequence. A particular read may...
Forum: Bioinformatics 09-28-2010, 07:51 AM
Replies: 22
Views: 7,598
Posted By Xian
Hi Jigang, I've pm'ed you. -Xian

Hi Jigang,

I've pm'ed you.

-Xian
Forum: Bioinformatics 09-24-2010, 01:10 PM
Replies: 22
Views: 7,598
Posted By Xian
Hi Jigang, Which software do you mean?...

Hi Jigang,

Which software do you mean? BreakDancer? Which email did you send the question to?

-Xian
Forum: Bioinformatics 09-24-2010, 08:01 AM
Replies: 22
Views: 7,598
Posted By Xian
Hi Jigang, To visualize the data, you can...

Hi Jigang,

To visualize the data, you can use samtools view in http://samtools.sourceforge.net/samtools.shtml. If it can be used by breakdancer bam2cfg.pl, the results of bam2cfg.pl should be...
Forum: Bioinformatics 09-20-2010, 12:22 PM
Replies: 22
Views: 7,598
Posted By Xian
Hi, please tell us more about your data. Is it a...

Hi, please tell us more about your data. Is it a paired end whole genome sequence data? Does it have the information like insert size, library, readgroup?
Forum: Bioinformatics 09-07-2010, 09:15 AM
Replies: 5
Views: 4,281
Posted By Xian
The error message is probably due to that the...

The error message is probably due to that the readgroup hasn't shown up as the key for flagHgram. Please change line 222 to

if(defined $flagHgram{$rg} && defined $flagHgram{$rg}{all}){
...
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