DEXSeq Splicing Result with incomplete lines between exons

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gunjan.dikshit • 0

@gunjandikshit-22875

Last seen 2.1 years ago

Australia

Hello,

I did differential exon usage analysis for my data using DEXSeq. I have two experimental conditions and the plot generated by plotDEXSeq() function is a little weird. Can you help me in understanding the plot since it shows some incomplete lines between the exons. What do these incomplete lines refer to and whether/how should I get rid of them?

plotDEXSeq(dxr, "Mlp60A", legend=TRUE,displayTranscripts=TRUE, splicing=TRUE,  cex.axis=1.2, cex=1.3, lwd=2 )

I followed the tutorial and generated the results. Here I am showing one gene- Differential exon usage for one of the significant gene Any help/explanation is highly appreciated. Thank you.

Best, Gunjan

DEXSeq Splicing Exon Usage • 1.1k views

ADD COMMENT • link 4.2 years ago gunjan.dikshit • 0

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Could be a bug. Are you ordering the results by p-value or something like that?

ADD REPLY • link 4.2 years ago Alejandro Reyes ★ 1.9k

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No, I did not. I just removed the NA values before plotting it. Could it be because of the incorrect annotation?

ADD REPLY • link 4.2 years ago gunjan.dikshit • 0

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Yes, could be. Would you mind trying plotting these values without removing the NA values and report back if that makes a difference?

ADD REPLY • link 4.2 years ago Alejandro Reyes ★ 1.9k

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