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Answer: Answer: Subsetting RNAseq data | voomaByGroup()
1 day ago • updated 16 hours ago Gordon Smyth 50k
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127
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Answer: Answer: How to correctly adjust for gender in edgeR
4 days ago Gordon Smyth 50k
1
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250
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Comment: Comment: How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
5 days ago Gordon Smyth 50k
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250
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Answer: Answer: How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
6 days ago Gordon Smyth 50k
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276
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Answer: Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
10 days ago Gordon Smyth 50k
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313
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Comment: Comment: Log-cpm values from limma
10 days ago • updated 9 days ago Gordon Smyth 50k
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1
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330
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Comment: Comment: Method to find pathways different between 2 groups
12 days ago Gordon Smyth 50k
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330
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Answer: Answer: Method to find pathways different between 2 groups
14 days ago Gordon Smyth 50k
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273
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Comment: Comment: package goseq seems to be not available on the latest version of R
14 days ago • updated 13 days ago Gordon Smyth 50k
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407
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Answer: Answer: limma Intercept vs No-intercept models completely changing DMR results?
16 days ago Gordon Smyth 50k
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1
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273
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Answer: Answer: package goseq seems to be not available on the latest version of R
16 days ago • updated 15 days ago Gordon Smyth 50k
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178
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Answer: Answer: NEED FOR NESSASORY HELP
17 days ago Gordon Smyth 50k
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161
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Answer: Answer: Gene-by-sample covariates in limma
17 days ago Gordon Smyth 50k
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2
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631
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Answer: Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
17 days ago Gordon Smyth 50k
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1
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1.3k
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Comment: Comment: Why p value inconsistent when using different number of pathway score?
20 days ago Gordon Smyth 50k
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1
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216
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Answer: Answer: Improving the design matrices vignette in RNAseq123
23 days ago Gordon Smyth 50k
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0
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205
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Answer: Answer: Citation for edgeR user guide
26 days ago Gordon Smyth 50k
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1
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192
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Answer: Answer: limma-voom: Calculate the log-fold change in gene expression within a sample
27 days ago Gordon Smyth 50k
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474
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Comment: Comment: FilterByExpr low counts with small sample size
29 days ago • updated 28 days ago Gordon Smyth 50k
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1.3k
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Comment: Comment: Why p value inconsistent when using different number of pathway score?
29 days ago Gordon Smyth 50k
2
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1
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1.3k
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Answer: Answer: Why p value inconsistent when using different number of pathway score?
29 days ago Gordon Smyth 50k
1
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0
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1.3k
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Comment: Comment: Why p value inconsistent when using different number of pathway score?
29 days ago Gordon Smyth 50k
0
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1
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243
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Answer: Answer: RNAseq:Technical replicates from different batches
4 weeks ago Gordon Smyth 50k
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0
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217
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Comment: Comment: Finding DEGs by using edgeR
4 weeks ago Gordon Smyth 50k
3
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1
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474
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Answer: Answer: FilterByExpr low counts with small sample size
4 weeks ago Gordon Smyth 50k
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1
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150
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Answer: Answer: How to make DGEList and design matrix by edgeR package
4 weeks ago Gordon Smyth 50k
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1
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217
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Answer: Answer: Finding DEGs by using edgeR
4 weeks ago Gordon Smyth 50k
3
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1
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313
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Answer: Answer: Log-cpm values from limma
4 weeks ago Gordon Smyth 50k
0
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1
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474
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Comment: Comment: FilterByExpr low counts with small sample size
4 weeks ago Gordon Smyth 50k
0
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0
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1.3k
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Comment: Comment: Batch correction and repeated measures
4 weeks ago Gordon Smyth 50k
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1
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366
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Comment: Comment: Methylation Analysis experiment design using Limma
4 weeks ago Gordon Smyth 50k
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1
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366
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Answer: Answer: Methylation Analysis experiment design using Limma
4 weeks ago Gordon Smyth 50k
1
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1
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978
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
4 weeks ago Gordon Smyth 50k
1
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1
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978
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
4 weeks ago Gordon Smyth 50k
1
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0
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208
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Answer: Answer: Differentially expressed genes in monocle pseudotime
4 weeks ago Gordon Smyth 50k
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0
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368
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Answer: Answer: permutation test in edgeR
5 weeks ago • updated 29 days ago Gordon Smyth 50k
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0
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369
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Answer: Answer: Why is my gene not significantly differentially expressed?
5 weeks ago • updated 4 weeks ago Gordon Smyth 50k
1
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2
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978
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
5 weeks ago Gordon Smyth 50k
2
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1
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978
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Answer: Answer: Light difference when using coef vs omit a group when compare 3 groups.
5 weeks ago Gordon Smyth 50k
0
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0
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187
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Answer: Answer: Limma design matrix only showing 3/4 treatments?
6 weeks ago Gordon Smyth 50k
1
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1
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2.1k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
6 weeks ago Gordon Smyth 50k
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0
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2.1k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
6 weeks ago Gordon Smyth 50k
0
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0
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267
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Comment: Comment: Regressing out batch effects
6 weeks ago Gordon Smyth 50k
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1
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2.1k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
6 weeks ago Gordon Smyth 50k
0
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0
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993
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Comment: Comment: limma models out of memory issue on Slurm HPC
6 weeks ago Gordon Smyth 50k
0
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1
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463
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Comment: Comment: Using a change in a continuous explanatory variable to test changes in gene expr
6 weeks ago Gordon Smyth 50k
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1
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993
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Comment: Comment: limma models out of memory issue on Slurm HPC
6 weeks ago Gordon Smyth 50k
1
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1
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463
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Answer: Answer: Using a change in a continuous explanatory variable to test changes in gene expr
6 weeks ago Gordon Smyth 50k
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1
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198
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Answer: Answer: edgeR analysis: glm functions and offset matrix
6 weeks ago Gordon Smyth 50k
1
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0
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993
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Comment: Comment: limma models out of memory issue on Slurm HPC
6 weeks ago Gordon Smyth 50k
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