Bioconductor Lmer

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limma lmer duplicateCorrelation technicalrepeats

3 months ago • updated 9 weeks ago john • 0

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480

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lmer MAST DifferentialExpression

6 months ago nhaus ▴ 70

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limma caret lm lmer lme4

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by Sindre ▴ 110

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bumphunter minfi lmer dmrcate dmr analysis

updated 6.7 years ago by Tim Peters ▴ 200 • written 6.7 years ago by Ashlynn • 0

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illumina450k limma lme4 lmer

updated 8.8 years ago by Aaron Lun ★ 28k • written 8.8 years ago by DSP • 0

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Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0

Thanks James!

Comment: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k

I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…

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Comment: can't install tscR

Answer: Csaw normalization strategies - general inquiry

A: DESeq2 interaction term

Comment: Recount3 data correspond to TCGA data

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