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Old 04-14-2011, 07:40 AM   #1
nivea
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Question Separate forward and reverse coverage in Artemis

Hi all,

Do you know how to demonstrate the reverse strand in the <0 region when you input *.BAM file including all the mapped reads in both forward and reverse strand?
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Old 04-14-2011, 10:59 AM   #2
nilshomer
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This question is not making sense to me. Could you clarify?
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Old 04-14-2011, 11:27 AM   #3
nivea
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Quote:
Originally Posted by nilshomer View Post
This question is not making sense to me. Could you clarify?
Hi, sorry for not clear enough.
After you read a BAM file(a mapped RNA-seq reads file) using Atermis, you'll see the expressed coding regions covered by many overlaped reads. However, the mapped reads from both forward strand and reverse strand are piled up in the above zero region. I'm considering a way to differentiate these reads, such that the forward strand reads can be piled up in the above zero region while the reads from the reverse strand can be piled up in below zero region...
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Old 12-11-2011, 11:14 AM   #4
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I'm having the same issue. Has anyone found a solution?
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Old 12-12-2011, 03:20 AM   #5
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Have you explored the right click menu? Artemis/BamView has several ways of displaying BAM files and I think one of them is strand specific.
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