Question: Visualize paired end reads
0
gravatar for Chirag Nepal
3 days ago by
Chirag Nepal2.2k
Copenhagen
Chirag Nepal2.2k wrote:

Hi There

Any suggestion on how to visualize the connection between two reads/fragments of paired end RNA-seq data. The screenshot of the description is posted here

One paired ends are map to the genome by using BLAT (shown on top as black bar). Aligned reads from STAR are shown in blue and red. There is blue and red fragment that corresponds to the above black fragment. I want to show a connecting line between these two black bars or between it's corresponding blue/red. thanks !!

ADD COMMENTlink modified 3 days ago • written 3 days ago by Chirag Nepal2.2k

Hello Chirag Nepal!

It appears that your post has been cross-posted to another site:

enter link description here

This is typically not recommended as it runs the risk of annoying people in both communities.

ADD REPLYlink modified 3 days ago • written 3 days ago by Pierre Lindenbaum126k

Hi Pierre, I added the twitter url to show the image of what i was describing. In that case, i will now remove the twitter url from here. Not gonna do that again. thanks !

ADD REPLYlink written 3 days ago by Chirag Nepal2.2k
1
gravatar for genomax
3 days ago by
genomax78k
United States
genomax78k wrote:

If you use IGV, you can right-click in IGV window and then choose "View as pairs". Unless I completely missed what you are asking.

ADD COMMENTlink modified 3 days ago • written 3 days ago by genomax78k
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