Showing : Log2 • reset
6
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8
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5.7k
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Does limma calculate pvalues using log2 fold changes or with linear values?
limma pvalue log2fc log2
updated 17 months ago by 65k • written 8.1 years ago by ▴ 60
2
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4
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3.0k
views
exporting limma log2 data
limma export log2 data agilent
updated 9.5 years ago by 65k • written 9.5 years ago by ▴ 110
0
votes
8
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2.6k
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DESeq2 different log2FC and p-value filtering parameters results comparison
log2 DESeq2
21 months ago User000 • 0
0
votes
1
reply
1.9k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 3.1 years ago by ★ 3.9k • written 3.1 years ago by • 0
3
votes
6
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1.9k
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2 edgeR RNA limma Normalization
17 months ago Sara • 0
3
votes
1
reply
1.4k
views
log2 of normalized counts for further analyzes
DESeq2 log2 normalized counts
updated 14 months ago by 65k • written 14 months ago by ▴ 10
0
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0
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1.4k
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DESeq2: Extract mean normalized log2 counts by level
normalized counts log2
5.6 years ago agdif ▴ 10
0
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0
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919
views
PROBLEM WITH MFUZZ
mfuzz fold change log2 STANDARDISATION
5.8 years ago prakashpandey1111 • 0
0
votes
1
reply
877
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First time Statistical Analysis of RNA-seq
edgeR RNA-Seq log2 foldchange q_value
updated 2.3 years ago by 50k • written 2.3 years ago by • 0
0
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0
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780
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NMF pre-processsing effect on classification
NMF log2 classification bioconductor
5.8 years ago Seymoo • 0
10 results • Page 1 of 1
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Comment: Estimating Cell Counts for EPIC V2 array data by normawiedman059 • 0
0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…
Comment: Finding DEGs by using edgeR by Gordon Smyth 50k
Filtering (removing lowly expressed genes) is separate to normalization. It isn't clear why not subsetting would cause any difficulty. It …
Comment: How to make DGEList and design matrix by edgeR package by prity6459 • 0
Thank you for your suggestion. Yes, I have made DGEList and design matrix in my script. But I was not entirely confident while making thos…
Comment: Finding DEGs by using edgeR by prity6459 • 0
Hello Gordon, Thanks for your response. By normalization, I meant that I have already removed lowly expressed genes from my count matrix. …
Answer: FilterByExpr low counts with small sample size by Gordon Smyth 50k
It doesn't seem to me that there is necessarily any problem with the analysis. You say that there are "too many low-reads" but actually th…
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