Bioconductor Data

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480

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HELP Data

updated 15 months ago by Guido Hooiveld ★ 3.8k • written 15 months ago by mcclurejenniferc • 0

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381

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BAM Segmentation CINdex VCF Data

15 months ago raven1306 • 0

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1.6k

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ExpressionSet Assay NanoString Error Data

updated 16 months ago by James W. MacDonald 64k • written 16 months ago by junli1988 • 0

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439

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Cytometry R Data

17 months ago hamiltond ▴ 10

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744

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data immunology software vaccinology

2.2 years ago Daniel • 0

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957

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TCGAbiolinks data normalize l

updated 2.4 years ago by Kevin Blighe 3.9k • written 2.4 years ago by DANIELA • 0

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1.6k

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data package submission BiocCheck

4.4 years ago j.flesch ▴ 10

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835

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package data

5.3 years ago divyswar01 • 0

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631

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cellGrowth data

5.6 years ago muitalegal888 • 0

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1.1k

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omiccircos bug hg19 hg18 data

6.6 years ago matthew.bashton • 0

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1.0k

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transform flow cytometry data

updated 6.9 years ago by SamGG ▴ 320 • written 6.9 years ago by cr • 0

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1.1k

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rna-seq data

updated 7.0 years ago by Gordon Smyth 49k • written 7.0 years ago by bioinformatics ▴ 10

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1.3k

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edger data analysis

8.4 years ago Pau Marc Muñoz Torres ▴ 20

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1.1k

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data

8.5 years ago Bogdan ▴ 670

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2.8k

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biseq fdr data results

8.7 years ago • updated 8.6 years ago mnaymik ▴ 10

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1.9k

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flowCore flowjo data

updated 9.0 years ago by Greg Finak ▴ 150 • written 9.1 years ago by AJC ▴ 10

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2.9k

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limma export log2 data agilent

updated 9.2 years ago by James W. MacDonald 64k • written 9.2 years ago by Jahn Davik ▴ 110

17 results • Page 1 of 1

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Comment: Correct the batch effect in methylation analysis in R by Gordon Smyth 49k

> Is it okay to apply removeBatchEffect before a limma analysis(limma linear model)? No, it is not ok to apply any batch correction before…

Comment: Correct the batch effect in methylation analysis in R by kyj2226 • 0

Thank you for your response Gordon :) I've already run the code below, just add batch to the limma linear model design <- model.matri…

Answer: Correct the batch effect in methylation analysis in R by Gordon Smyth 49k

You should not apply batch correction functions like harman before a limma analysis. Instead, just add `batch` to the limma linear model. …

Answer: Agilent Microarray Gene Oncology analysis gone wrong by Gordon Smyth 49k

Your use of `coef=1` is incorrect, for reasons explained in the limma User's Guide. If you had simply left `coef` at the default, then thin…

Comment: Normalised counts from RUVg in RUVSeq by Shaimaa Gamal • 0

Hello I was wondering if I should use ruv-corrected counts and ruv lib sizes to create a DGE object that can be used later for DE analysis …

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Answer: Correct the batch effect in methylation analysis in R

Answer: enrichGOgradient color change

Answer: Filter genes by expression for voomLmFit

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