Is it correct to merge bigwig with TPM values from rnaSeq from different biological replicates for the same condition ?
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4.9 years ago
ZheFrench ▴ 420

STAR can give output in bigwig for each strand with RPM values for each biological replicate.

Is it correct to merge them to visualize them in one track ? or does it corrupt initialy computed TPM values ?

is it better to look separately to each replicate or should I just merge raw counts ?

I'd like to have only one track for each condition in the viewer (IGV, or UCSC...) and not several tracks per condition.

RNA-Seq wig bigwg visualisation • 1.4k views
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4.9 years ago
Satyajeet Khare ★ 1.6k

I would keep biological replicates separate and use them to test my hypothesis. You can use any one of three replicates to generate a figure. If the event you want to display on one track, is statistically accurate, it should be present in individual replicates too.

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Is merging the str1 and str2 bigwig files with RPM correct?

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