Showing : batch effects • reset
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full confounding between batch and treatment effects
batch effects limma batch-correction RNAseq RUVseq
updated 4.0 years ago by 66k • written 4.0 years ago by • 0
0
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3
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858
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Problem with including batch effects in linear model in LIMMA- samples are removed
limma batch effects linear model
updated 4.3 years ago by 66k • written 4.3 years ago by ▴ 20
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0
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2.0k
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adjusting for batch using ComBat (sva) - singularity error
microarray combat sva batch effects
4.4 years ago anne.bozack • 0
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891
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DEG among experimental and control group in MAST
MAST DEG batch effects
4.7 years ago chendianyu • 0
0
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695
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adding batch effects as a covariate in additive model in edgeR
edger batch effects
updated 4.9 years ago by 66k • written 4.9 years ago by • 0
1
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8
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1.3k
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Code to address batch effect in total number of reads/ sample for DEG using Ballgown
differential expression analysis ballgown r batch effects total number of reads
updated 5.6 years ago by 66k • written 5.6 years ago by • 0
0
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1.2k
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Batch correction with uncertain biological variables
sva svaseq batch effect batch effects batch effect correction
6.8 years ago vedran.franke • 0
1
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1.8k
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Adjusting batch effects in microarray expression data using empirical Bayes methods
ComBat microarray batch effects
updated 6.8 years ago by 66k • written 6.8 years ago by ▴ 10
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2
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1.3k
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Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
deseq2 random effects batch effects RNA-seq rna-seq
updated 6.8 years ago by 42k • written 6.8 years ago by • 0
9 results • Page 1 of 1
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Answer: Documenting resources in an `ExperimentHub` package? by James W. MacDonald 66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue by shepherl 3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq? by baptiste.bidon • 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Comment: ChAMP installation issue by Tahirah • 0
Hello. Could you please share how you managed to install ChAMP in R 4.4.0? I also have R 4.4.0 and Bioconductor 3.19 version and ChAMP fail…
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data by James W. MacDonald 66k
Yes, you can use `limma`.
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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