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Answer: Answer: Improving the design matrices vignette in RNAseq123
7 hours ago Gordon Smyth 50k
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85
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Answer: Answer: Citation for edgeR user guide
2 days ago Gordon Smyth 50k
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0
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97
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Answer: Answer: limma-voom: Calculate the log-fold change in gene expression within a sample
3 days ago Gordon Smyth 50k
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1
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338
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Comment: Comment: FilterByExpr low counts with small sample size
5 days ago Gordon Smyth 50k
1
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1
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784
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Comment: Comment: Why p value inconsistent when using different number of pathway score?
5 days ago Gordon Smyth 50k
2
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1
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784
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Answer: Answer: Why p value inconsistent when using different number of pathway score?
5 days ago Gordon Smyth 50k
1
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0
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784
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Comment: Comment: Why p value inconsistent when using different number of pathway score?
5 days ago Gordon Smyth 50k
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1
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156
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Answer: Answer: RNAseq:Technical replicates from different batches
6 days ago Gordon Smyth 50k
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130
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Comment: Comment: Finding DEGs by using edgeR
7 days ago Gordon Smyth 50k
3
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1
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338
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Answer: Answer: FilterByExpr low counts with small sample size
7 days ago Gordon Smyth 50k
0
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1
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91
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Answer: Answer: How to make DGEList and design matrix by edgeR package
7 days ago Gordon Smyth 50k
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1
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130
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Answer: Answer: Finding DEGs by using edgeR
7 days ago Gordon Smyth 50k
3
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122
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Answer: Answer: Log-cpm values from limma
7 days ago Gordon Smyth 50k
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1
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338
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Comment: Comment: FilterByExpr low counts with small sample size
8 days ago Gordon Smyth 50k
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0
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1.2k
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Comment: Comment: Batch correction and repeated measures
8 days ago Gordon Smyth 50k
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1
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254
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Comment: Comment: Methylation Analysis experiment design using Limma
8 days ago Gordon Smyth 50k
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1
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254
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Answer: Answer: Methylation Analysis experiment design using Limma
9 days ago Gordon Smyth 50k
1
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1
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862
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
9 days ago Gordon Smyth 50k
1
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1
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862
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
9 days ago Gordon Smyth 50k
1
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0
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162
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Answer: Answer: Differentially expressed genes in monocle pseudotime
10 days ago Gordon Smyth 50k
0
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0
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294
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Answer: Answer: permutation test in edgeR
11 days ago • updated 5 days ago Gordon Smyth 50k
0
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0
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326
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Answer: Answer: Why is my gene not significantly differentially expressed?
11 days ago Gordon Smyth 50k
1
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2
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862
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Comment: Comment: Light difference when using coef vs omit a group when compare 3 groups.
12 days ago • updated 11 days ago Gordon Smyth 50k
2
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1
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862
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Answer: Answer: Light difference when using coef vs omit a group when compare 3 groups.
14 days ago Gordon Smyth 50k
0
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0
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147
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Answer: Answer: Limma design matrix only showing 3/4 treatments?
20 days ago Gordon Smyth 50k
1
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1
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
20 days ago Gordon Smyth 50k
1
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0
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
20 days ago Gordon Smyth 50k
0
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0
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225
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Comment: Comment: Regressing out batch effects
21 days ago Gordon Smyth 50k
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1
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
21 days ago Gordon Smyth 50k
0
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0
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
21 days ago Gordon Smyth 50k
0
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1
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416
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Comment: Comment: Using a change in a continuous explanatory variable to test changes in gene expr
22 days ago • updated 21 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
22 days ago Gordon Smyth 50k
1
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1
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416
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Answer: Answer: Using a change in a continuous explanatory variable to test changes in gene expr
22 days ago • updated 21 days ago Gordon Smyth 50k
0
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1
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148
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Answer: Answer: edgeR analysis: glm functions and offset matrix
23 days ago Gordon Smyth 50k
1
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0
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
2
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago • updated 22 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
0
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1
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826
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Comment: Comment: limma models out of memory issue on Slurm HPC
23 days ago Gordon Smyth 50k
1
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1
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
23 days ago Gordon Smyth 50k
0
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1
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395
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Comment: Comment: Adjust RNA-seq counts (more than one batch variable) for plotting differentially
24 days ago Gordon Smyth 50k
0
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1
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395
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Answer: Answer: Adjust RNA-seq counts (more than one batch variable) for plotting differentially
24 days ago Gordon Smyth 50k
1
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0
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
26 days ago Gordon Smyth 50k
1
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2
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
26 days ago Gordon Smyth 50k
1
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1
reply
1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
26 days ago Gordon Smyth 50k
0
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0
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340
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Comment: Comment: Differing results from plotMDS and PCAtools
27 days ago Gordon Smyth 50k
3
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1
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1.8k
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Comment: Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
27 days ago • updated 24 days ago Gordon Smyth 50k
1
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0
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340
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Comment: Comment: Differing results from plotMDS and PCAtools
27 days ago Gordon Smyth 50k
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