Question: How To Make Reads Alignment Visualization
0
gravatar for quge856
5.3 years ago by
quge85650
quge85650 wrote:

Hi there,

I know there are many NGS alignment viewers (bamview, gap5, igv, mapview, tablet, tview and so on) can make visualization in genome scale. However, what I urgent need is a tool/script/method to show alignment in text, like figures in miRBase (here is a sample). Any one can help me out? Thanks a lot!

ADD COMMENTlink modified 5.3 years ago by Tky980 • written 5.3 years ago by quge85650

what's wrong with tview ?

ADD REPLYlink written 5.3 years ago by Pierre Lindenbaum112k

Thanks for input. tview in samtools is good, however, it's not very friendly to snapshot or export result in .png. Meanwhile, it also failed to display reads information (like count number)

ADD REPLYlink modified 5.3 years ago • written 5.3 years ago by quge85650
0
gravatar for Tky
5.3 years ago by
Tky980
Japan
Tky980 wrote:

Try IGV, load your data and zoon in, you could get a similar figure as the sample file,

ADD COMMENTlink written 5.3 years ago by Tky980

Thank you for reply. I tried IGV before. It's awesome, as well as tablet, bamview and so on. Somehow, they make a big fuss over my minor issue. So I decide to handle it by perl script. Anyway, thx a lot

ADD REPLYlink written 5.3 years ago by quge85650
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