Showing : ebseq • reset
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EBTest error please add gene/isoform names to the data matrix
EBSeq
3.9 years ago lli2 • 0
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3
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902
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Heatmap for ebseq2 output
ebseq
5.0 years ago drkousi31 • 0
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1.0k
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DE analysis when large portion of transcriptome is changed
rna-seq edger ebseq differential expression
updated 5.8 years ago by ★ 28k • written 5.8 years ago by • 0
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[EBSEQ] Strange NA values
ebseq differential gene expression
7.8 years ago jean.keller ▴ 10
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930
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[EBSeq] Normalization and DE genes detection
ebseq normalization differential gene expression
8.0 years ago jean.keller ▴ 10
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1.2k
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EBSeq-HMM: retrieving expression paths for genes differing by time AND treatment
ebseq ebseq-hmm rna-seq
8.5 years ago vieuphoria ▴ 10
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911
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Matching New Samples to Differential Expression Profile
differential expression ebseq rnaseq
8.8 years ago jbarker2 • 0
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1.4k
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How to fully use the list of DEGs in non model species?
deseq2 gage ebseq rnaseq
8.8 years ago jackipchiho ▴ 10
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1.3k
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EBSeq package gives NaN Values for EBMultiTest
differential expression ebseq rnaseq
9.0 years ago jbarker2 • 0
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2
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2.8k
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DE analysis with reference transcriptome
Sequencing GO Organism edgeR DESeq EBSeq Sequencing GO Organism edgeR DESeq EBSeq
updated 10.0 years ago by 65k • written 10.0 years ago by ▴ 10
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1.6k
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TCC::ERROR: Need the design matrix for GLM
DifferentialExpression Normalization Cancer edgeR baySeq DESeq EBSeq TCC Normalization
updated 10.0 years ago by ▴ 10 • written 10.0 years ago by 50k
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1.7k
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TCC::ERROR: Need the design matrix for GLM.
DifferentialExpression Normalization Cancer edgeR baySeq DESeq EBSeq TCC Normalization
updated 10.1 years ago by ▴ 10 • written 10.1 years ago by ▴ 100
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1.0k
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EBSeq Results Affected By Outlying Values
EBSeq EBSeq
10.3 years ago Dario Strbenac ★ 1.5k
13 results • Page 1 of 1
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Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga by Michael Love 41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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