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Quantile
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4
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792
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how to extract list in quantile in R
R
quantile
list
12 months ago
sat
• 0
0
votes
1
reply
850
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile
noob
Normalization
minfi
minfiDataEPIC
updated 19 months ago by
James W. MacDonald
65k • written 19 months ago by
mikat
• 0
0
votes
1
reply
1.1k
views
Re-normalize microarray dataset in R
microarray
quantile
expression
R
Normalization
updated 2.7 years ago by
Konstantinos Yeles
▴ 80 • written 2.7 years ago by
mohammedtoufiq91
▴ 10
1
vote
3
replies
811
views
CAGEr: Quantile Values (q_0.1 and q_0.9) in CAGEset / CAGEexp objects
CAGEr
CAGEset
quantile
CAGEexp
3.9 years ago
mirkocelii
▴ 40
2
votes
3
replies
1.7k
views
Bioconductor: quantile normalization
normalization
quantile
preprocesscore
updated 6.0 years ago by
James W. MacDonald
65k • written 6.0 years ago by
KVC_bioinfo
• 0
5 results • Page
1 of 1
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Replies
Comment: Unable to annotate ExpressionSet object from hugene11st chip
by
James W. MacDonald
65k
Let's take a closer look. ``` > library(GEOquery) ## some random data > getGEOSuppFiles("GSE193983") > setwd("GSE193983/") > untar("GSE19…
Comment: DEG Filtering
by
Gordon Smyth
50k
RMA normalization is good but batch correction using NOISeq isn't right. Data shouldn't be batch corrected before the limma analysis and NO…
Answer: maftools: Error in validateMaf(maf = maf, isTCGA = isTCGA, rdup = removeDuplicat
by
snijesh
▴ 20
You can try: using `read.delim` or `fread`. ``` my_maf = data.table::fread("path/to/maf/sample.maf") my_maf = read.maf(maf = my_maf) …
Comment: DEG Filtering
by
Amit
• 0
Hi Gordon, Thank you for your response and advice. I want to analyze Dataset GSE18090 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi) whic…
Comment: edgeR, 3 x 2 design with a batch effect and contrasts
by
Gordon Smyth
50k
Yes, that is a quote from [A guide to creating design matrices for gene expression experiments](https://bioconductor.org/packages/release/w…
Votes
Comment: DEG Filtering
Answer: DEG Filtering
Answer: DEG Filtering
Answer: edgeR, 3 x 2 design with a batch effect and contrasts
Answer: padj-based gradient scale from barplot (clusterProfiler results) does not work p
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