Biostar Rrbs

Showing : rrbs • reset

votes

replies

296

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edgeR model-selection RRBS mixture-experiment

5 months ago ingerslev • 0

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replies

214

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MethylCC RRBS cord blood

14 months ago weichen-cls • 0

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148

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Biseq Methylation DMP DMR RRBS

14 months ago i.s.castanho • 0

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104

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biseq betaRegression RRBS Methylation

18 months ago i.s.castanho • 0

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replies

765

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edgeR rrbs

updated 2.7 years ago by Gordon Smyth 43k • written 2.7 years ago by ingerslev • 0

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813

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methykit rrbs

updated 3.4 years ago by Mike Smith ★ 5.1k • written 3.4 years ago by bekah ▴ 20

votes

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651

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edgeR methyation RRBS

updated 3.7 years ago by Gordon Smyth 43k • written 3.7 years ago by osa.zuta ▴ 40

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599

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biseq RRBS betaregression

4.5 years ago l.eijssen • 0

vote

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1.1k

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sva RRBS

updated 4.5 years ago by Jeff Leek ▴ 610 • written 4.5 years ago by mrodrigues.fernanda ▴ 10

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1.1k

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rrbs batch effect methylation sva

updated 5.0 years ago by dashbrook1 • 0 • written 6.2 years ago by GFM ▴ 20

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823

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limma rrbs bsseq

updated 5.3 years ago by Aaron Lun ★ 27k • written 5.3 years ago by nhejazi • 0

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1.2k

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biseq RRBS SAAP-BS coverage

6.4 years ago maria.maqueda • 0

12 results • Page 1 of 1

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Comment: At least one covariate is confounded with batch! Please remove confounded covari by James W. MacDonald 58k

The error you get from `ComBat` comes from the test ``` qr(design)$rank < ncol(design) ``` And inside of `nonEstimable` is, as one might …

Comment: Understanding output of Negative Binomial in DESeq2 by swbarnes2 ▴ 850

Cross posted at Biostars: https://www.biostars.org/p/9490151/

Comment: error: cannot execute 'f951': execvp: No such file or directory when downloading by ATpoint ▴ 840

What is the output of `which f951`?

Comment: At least one covariate is confounded with batch! Please remove confounded covari by NewBioInfo • 0

Thank you James for your response. I tried `limma` and seems like my data matrix was valid for full rank. >library(limma) >nonEst…

Comment: ggtree install by bjarke ▴ 10

Excellent! Many thanks Mike.

Votes

Answer: Effect size using likelihood ratio test in DESeq2

Comment: ggtree install

Answer: Warning messages on Apple M1 BigSur

Comment: Use of coef() as a measure of effect size in a multiple regression using DESeq2

Answer: Log fold change interpretation of time series with Wald test

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