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How To Make Reads Alignment Visualization

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!

text alignment viewer visualization
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updated by Tky Tky • written by quge856 • quge856

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)

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written by quge856 • quge856

1 answer

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

• 90 views • link
written by Tky Tky

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

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written by quge856 • quge856

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