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confounding
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adjusting for confounding effects in edgeR
edger
confounding
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Victoria
• 0
0
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0
replies
1.1k
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Possible confounding of variable of interest with batch covariate and Partial NA coefficients when including batch in limma linear model for microarr…
limma
batch effect
design matrix
microarray
confounding
7.0 years ago
svlachavas
▴ 830
8
votes
3
replies
2.7k
views
[Limma] Testing continuous variable with interaction
limma
voom
continuous
interactions
confounding
7.6 years ago
lanhuong
▴ 20
1
vote
9
replies
3.6k
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LIMMA for paired analysis with adjustment for confounding continuous variables
limma
gene expression
confounding
adjustment
paired
8.5 years ago
Loodramon
• 0
0
votes
4
replies
1.7k
views
Use of confounders in downstream analysis
limma
GSA
confounding
within-pair analysis
450k
9.0 years ago
Aileen Bahl
▴ 10
5 results • Page
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Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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