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It makes absolutely no sense to conduct such an analysis. I strongly discourage you to even start with it. Results will be utterly nonsense…
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Cross-posted:
https://support.bioconductor.org/p/9158194/
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Sorry, this was supposed to be a comment appended to the chain above. I didn't mean to post as an answer.
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Curious if others have also benefited from Picard's [CompareSAMs][1] tool. Seems to do exactly what Madhu has requested.
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Thank you! I will give it a shot
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This has been issued a dozen times before. Have a look at Limma package.
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