Any visualization software that shows pair end read information?

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I can detect my protein but the encoding DNA sequence has stop codons within. Should I ignore the stop codons?

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K.s Sim

I got use it.

Just it can not give different color of pairend information. All read are green. only show the read information when click on it.

Brendan D O'Fallon

The "Integrated Genome Viewer" IGV is often used. It has an option that will show paired-end information by drawing lines between pairs on a big alignment. Pretty slick overall.

Eitan Rubin

We use IGV and love it!

Eugenio Montini

IGV is cool!

Luis del Peso

IGV is excellent

Lionel Guy

Good old consed does the job too.

thx alot.

I got IGV, consed that i still can not get the software even they authorize it ald.

Samuel Mondy

You could use CLC workbench that allows the visualization of paired end and mate pairs.

bcoz CLC need $$ that make me no option to use use open-source.

haiz~

Andreas Gisel

try gbrowse (http://gmod.org/wiki/GBrowse) - is very easy to use and flexible

It just listed into my list few week ago.

Never thought it use on NGS rather genome browse for annotation

It's not for genome annotation used ?

Aniruddha Chatterjee

Seqmonk can do it easily if you are interested in DNA methylation analysis

Ying Wu

IGV and GBrowse are both excellent. If IGV does not work for you, you can also try IGB http://www.bioviz.org/igb/ or upload your data onto UCSC genome browser (if it is small dataset)