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microarrays
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sample size determination in microarrays studies with limma analysis
limma
sample size
microarrays
statistical power
6.0 years ago
eleonoregravier
▴ 70
0
votes
6
replies
2.6k
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not able to install geoquery package
microarrays
xml
RCurl
libxml2
libcurl
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
farahqureshi5
• 0
0
votes
0
replies
810
views
microarray data expression set
whole human genome microarray 4x44k
microarrays
7.1 years ago
farahqureshi5
• 0
5
votes
6
replies
1.4k
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Confusing: identify differentially expression genes (DEG) perturbed by a drug in Limma
limma
cmap
microarrays
differential gene expression
7.2 years ago
kevin.m.hao
▴ 10
7
votes
4
replies
3.2k
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Limma contrast for variables disease, gender and age
limma design matrix
limma
limma contrast matrix
microarrays
7.8 years ago
miyuki_iii
▴ 10
5 results • Page
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Comment: Error in champ.load(): The following specified files do not exist
by
Basti
▴ 760
The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/
Comment: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures
by
Gordon Smyth
50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma
by
Gordon Smyth
50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups.
by
Chris
• 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
Votes
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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