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Comment: C: edgeR 4 conditions
8.4 years ago Aaron Lun ★ 29k
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Answer: A: edgeR two conditions two diet treatment
8.4 years ago Aaron Lun ★ 29k
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Answer: A: How to extract DEG using limma at threshold value p<0.05 and fold change >1.5 ?
8.4 years ago Aaron Lun ★ 29k
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Answer: A: Why does Deseq, Deseq2, and EdgeR give vastly different results.
8.4 years ago Aaron Lun ★ 29k
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Answer: A: Correcting for Batch Effects Prior to Differential Gene Expression Analysis with
8.5 years ago Aaron Lun ★ 29k
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Answer: A: Trouble with DESeq2, edgeR, and limma not accepting zeros in input
8.5 years ago Aaron Lun ★ 29k
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Answer: A: differential expression analysis of htseq data with edgeR/voom
8.5 years ago Aaron Lun ★ 29k
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10k
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Comment: C: edgeR and batch effect
8.5 years ago Aaron Lun ★ 29k
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2.1k
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Comment: C: setting contrast in edgeR for time series data
8.5 years ago Aaron Lun ★ 29k
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2.1k
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Answer: A: setting contrast in edgeR for time series data
8.5 years ago Aaron Lun ★ 29k
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1.8k
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Answer: A: Limma Model Design
8.5 years ago Aaron Lun ★ 29k
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10k
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Comment: C: edgeR and batch effect
8.5 years ago Aaron Lun ★ 29k
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Answer: A: How to do normalization between different enzyme libraries and test the differen
8.5 years ago Aaron Lun ★ 29k
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1
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1.4k
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Comment: C: Design matrix and contrast formation in edgeR for DE analysis
8.5 years ago Aaron Lun ★ 29k
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1.4k
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Comment: C: Design matrix and contrast formation in edgeR for DE analysis
8.5 years ago Aaron Lun ★ 29k
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1
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4.7k
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Comment: C: Limma toptable interpretation check
8.5 years ago Aaron Lun ★ 29k
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1
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4.7k
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Answer: A: Limma toptable interpretation check
8.5 years ago Aaron Lun ★ 29k
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2.1k
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Answer: A: R package for Meta-Analysis of CHIP-Seq data
8.5 years ago Aaron Lun ★ 29k
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676
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Answer: A: egeR GLM approach
8.5 years ago Aaron Lun ★ 29k
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1
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3.3k
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Answer: A: How does newSCESet calculate expression matrix
8.5 years ago Aaron Lun ★ 29k
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1.3k
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Answer: A: calcAverage missing from Scater package
8.5 years ago Aaron Lun ★ 29k
4
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2.6k
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Answer: A: limma for Paired Samples vs. lme
8.5 years ago Aaron Lun ★ 29k
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1
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1.4k
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Answer: A: Design matrix and contrast formation in edgeR for DE analysis
8.5 years ago Aaron Lun ★ 29k
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2.1k
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Comment: C: Using Combat function of SVA to remove known batch effect and using the result f
8.5 years ago Aaron Lun ★ 29k
1
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1
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2.6k
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Answer: A: edgeR multiple coeff in "lrt <- glmLRT(fit, coef=)"
8.5 years ago Aaron Lun ★ 29k
0
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1
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2.1k
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Answer: A: Using Combat function of SVA to remove known batch effect and using the result f
8.5 years ago Aaron Lun ★ 29k
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2.5k
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Comment: C: Scran normalization error with computeSumFactors
8.5 years ago Aaron Lun ★ 29k
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2.0k
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Comment: C: Testing for DE genes
8.5 years ago Aaron Lun ★ 29k
4
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2.0k
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Comment: C: Testing for DE genes
8.5 years ago Aaron Lun ★ 29k
2
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2.0k
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Answer: A: Testing for DE genes
8.5 years ago Aaron Lun ★ 29k
1
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1.8k
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Comment: C: Experiment design contrasts any time edgeR
8.5 years ago Aaron Lun ★ 29k
3
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1
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1.8k
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Answer: A: Experiment design contrasts any time edgeR
8.5 years ago Aaron Lun ★ 29k
1
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2.2k
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Answer: A: Help: extract counts from RNA-seq .bam/.bai files
8.5 years ago Aaron Lun ★ 29k
2
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1
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2.7k
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Answer: A: Limma: difference between groups of paired data
8.5 years ago Aaron Lun ★ 29k
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1.8k
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Answer: A: plotRLE not working in scater
8.5 years ago Aaron Lun ★ 29k
0
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776
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Answer: A: Contrast matrix with 2 columns
8.5 years ago Aaron Lun ★ 29k
0
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5.9k
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Comment: C: Change point size and remove outline in scater's plotPCA
8.5 years ago Aaron Lun ★ 29k
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1
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3.2k
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Comment: C: Using duplicateCorrelation to handle replicate samples
8.5 years ago Aaron Lun ★ 29k
4
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1
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3.2k
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Answer: A: Using duplicateCorrelation to handle replicate samples
8.5 years ago Aaron Lun ★ 29k
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1
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1.9k
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Answer: A: should i include PCs or MDSs as covariates in methylation study?
8.5 years ago Aaron Lun ★ 29k
0
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0
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1.9k
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Comment: C: interpretation of edgeR multi factor conditions in GLM
8.5 years ago Aaron Lun ★ 29k
1
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1
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3.6k
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Answer: A: RNA-seq analysis on mouse data with human contamination in controls
8.6 years ago Aaron Lun ★ 29k
2
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0
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1.9k
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Comment: C: interpretation of edgeR multi factor conditions in GLM
8.6 years ago Aaron Lun ★ 29k
0
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0
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975
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Comment: C: Scater: mito.drop on an absolute value ?
8.6 years ago Aaron Lun ★ 29k
0
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1
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1.8k
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Comment: C: min enrichment in peak calling with diffHiC?
8.6 years ago Aaron Lun ★ 29k
0
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1
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1.8k
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Comment: C: min enrichment in peak calling with diffHiC?
8.6 years ago Aaron Lun ★ 29k
0
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1
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1.8k
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Answer: A: min enrichment in peak calling with diffHiC?
8.6 years ago Aaron Lun ★ 29k
1
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0
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3.8k
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Comment: C: Can edgeR TMM normalization be used for other count data?
8.6 years ago Aaron Lun ★ 29k
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0
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3.8k
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Comment: C: Can edgeR TMM normalization be used for other count data?
8.6 years ago Aaron Lun ★ 29k
1
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0
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1.7k
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Answer: A: edgeR p.adjust FDR = 0?
8.6 years ago Aaron Lun ★ 29k
2,880 results • Page 27 of 58
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