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Comment: what is the sampleFiles
by
James W. MacDonald
65k
I don't see any sampleFiles argument for any function in that package. Ideally you would at least tell us what function you are using.
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Michael Love
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Yes, apeglm requires relevel and nbinomWaldTest to generate the coefficient estimate and its SE.
Alternatively you can use ashr with a con…
Comment: A ComBat-seq issue: the covariates are confounded
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schlumbohm
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Dear ATpoint,
thank you for the comment. I did correct the question. For the group, I did accidentally share the input for all three batch…
Comment: Memory errors using read.bismark?
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Peter Hickey
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690
If you process serially (i.e. with `BPPARAM = SerialParam()`) then you might be okay.
The final object will be on the order of 250 GB in-me…
Comment: Memory errors using read.bismark?
by
Juan Higareda
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0
Thanks for the answer. Actually, processing one file and keeping it in memory wasn't the problem, is more processing all the 15 files to bu…
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