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Comment:
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago
Gordon Smyth
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0
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1
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436
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Comment:
Comment: Adjust RNA-seq counts (more than one batch variable) for plotting differentially
5 weeks ago
Gordon Smyth
50k
0
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1
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436
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Answer:
Answer: Adjust RNA-seq counts (more than one batch variable) for plotting differentially
5 weeks ago
Gordon Smyth
50k
1
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0
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2.0k
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Comment:
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago
Gordon Smyth
50k
1
vote
2
replies
2.0k
views
Comment:
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago
Gordon Smyth
50k
1
vote
1
reply
2.0k
views
Comment:
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago
Gordon Smyth
50k
0
votes
0
replies
390
views
Comment:
Comment: Differing results from plotMDS and PCAtools
5 weeks ago
Gordon Smyth
50k
3
votes
2
replies
2.0k
views
Comment:
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago
Gordon Smyth
50k
1
vote
0
replies
390
views
Comment:
Comment: Differing results from plotMDS and PCAtools
5 weeks ago
Gordon Smyth
50k
0
votes
0
replies
362
views
Comment:
Comment: Doing comparison of RNA-seq data using EdgeR
5 weeks ago
Gordon Smyth
50k
2
votes
1
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2.0k
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Answer:
Answer: The difference when using Limma compare between 3 conditions vs 2 conditions
5 weeks ago • updated 4 weeks ago
Gordon Smyth
50k
0
votes
1
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362
views
Answer:
Answer: Doing comparison of RNA-seq data using EdgeR
5 weeks ago
Gordon Smyth
50k
2
votes
1
reply
390
views
Answer:
Answer: Differing results from plotMDS and PCAtools
5 weeks ago
Gordon Smyth
50k
2
votes
0
replies
717
views
Comment:
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
6 weeks ago
Gordon Smyth
50k
1
vote
0
replies
545
views
Answer:
Answer: Microarray Limma Model fitting and DEG
6 weeks ago • updated 5 weeks ago
Gordon Smyth
50k
1
vote
0
replies
465
views
Comment:
Comment: DEG Filtering
6 weeks ago
Gordon Smyth
50k
0
votes
1
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545
views
Answer:
Answer: Microarray Limma Model fitting and DEG
6 weeks ago
Gordon Smyth
50k
0
votes
1
reply
945
views
Comment:
Comment: limma models out of memory issue on Slurm HPC
6 weeks ago
Gordon Smyth
50k
2
votes
1
reply
945
views
Answer:
Answer: limma models out of memory issue on Slurm HPC
6 weeks ago • updated 5 weeks ago
Gordon Smyth
50k
2
votes
1
reply
464
views
Comment:
Comment: Batch Effect Correction, Gene Filtering
6 weeks ago
Gordon Smyth
50k
1
vote
0
replies
464
views
Comment:
Comment: Batch Effect Correction, Gene Filtering
6 weeks ago
Gordon Smyth
50k
0
votes
0
replies
237
views
Answer:
Answer: Using splicing junction counts with edgeR/limma-voom
6 weeks ago
Gordon Smyth
50k
2
votes
1
reply
717
views
Answer:
Answer: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
6 weeks ago
Gordon Smyth
50k
1
vote
1
reply
465
views
Comment:
Comment: DEG Filtering
7 weeks ago • updated 6 weeks ago
Gordon Smyth
50k
1
vote
1
reply
465
views
Comment:
Comment: DEG Filtering
7 weeks ago
Gordon Smyth
50k
1
vote
0
replies
297
views
Comment:
Comment: edgeR, 3 x 2 design with a batch effect and contrasts
7 weeks ago
Gordon Smyth
50k
1
vote
1
reply
297
views
Answer:
Answer: edgeR, 3 x 2 design with a batch effect and contrasts
7 weeks ago
Gordon Smyth
50k
1
vote
1
reply
496
views
Comment:
Comment: limma: vooma mean-variance trend and data filtration
7 weeks ago
Gordon Smyth
50k
0
votes
0
replies
186
views
Comment:
Comment: Rsubread: buildindex() should support multiple reference files
7 weeks ago
Gordon Smyth
50k
2
votes
1
reply
465
views
Answer:
Answer: DEG Filtering
7 weeks ago
Gordon Smyth
50k
0
votes
0
replies
287
views
Answer:
Answer: RNAseq analysis
7 weeks ago
Gordon Smyth
50k
1
vote
1
reply
260
views
Answer:
Answer: between lane normalization upper quantile
7 weeks ago
Gordon Smyth
50k
2
votes
1
reply
267
views
Answer:
Answer: Question about extracting co-efficients for pairwise comparisons in edgeR
7 weeks ago
Gordon Smyth
50k
0
votes
1
reply
444
views
Answer:
Answer: DESeq2 filtering vs edgeR filtering
8 weeks ago
Gordon Smyth
50k
0
votes
1
reply
496
views
Comment:
Comment: limma: vooma mean-variance trend and data filtration
8 weeks ago
Gordon Smyth
50k
1
vote
0
replies
416
views
Answer:
Answer: Cross-species analysis - how to compute the mid parent value?
8 weeks ago
Gordon Smyth
50k
0
votes
1
reply
496
views
Answer:
Answer: limma: vooma mean-variance trend and data filtration
8 weeks ago
Gordon Smyth
50k
0
votes
1
reply
526
views
Comment:
Comment: Constrast for Time Course Experiments using Limma
8 weeks ago
Gordon Smyth
50k
2
votes
1
reply
526
views
Answer:
Answer: Constrast for Time Course Experiments using Limma
9 weeks ago
Gordon Smyth
50k
0
votes
0
replies
300
views
Comment:
Comment: Differential enrichment analysis
9 weeks ago
Gordon Smyth
50k
1
vote
0
replies
439
views
Answer:
Answer: Right way to pseudobulk donors across replicates in edgeR
9 weeks ago
Gordon Smyth
50k
1
vote
1
reply
526
views
Comment:
Comment: Constrast for Time Course Experiments using Limma
9 weeks ago
Gordon Smyth
50k
0
votes
0
replies
744
views
Comment:
Comment: Strange logFC values in differential methylation site anslysis
9 weeks ago
Gordon Smyth
50k
0
votes
1
reply
439
views
Comment:
Comment: Right way to pseudobulk donors across replicates in edgeR
9 weeks ago
Gordon Smyth
50k
0
votes
1
reply
744
views
Comment:
Comment: Strange logFC values in differential methylation site anslysis
9 weeks ago
Gordon Smyth
50k
0
votes
1
reply
744
views
Comment:
Comment: Strange logFC values in differential methylation site anslysis
9 weeks ago
Gordon Smyth
50k
0
votes
0
replies
224
views
Answer:
Answer: Different results from DGE using different subgroups in model.matrix
9 weeks ago
Gordon Smyth
50k
0
votes
0
replies
744
views
Comment:
Comment: Strange logFC values in differential methylation site anslysis
9 weeks ago
Gordon Smyth
50k
0
votes
1
reply
744
views
Answer:
Answer: Strange logFC values in differential methylation site anslysis
9 weeks ago
Gordon Smyth
50k
2
votes
0
replies
470
views
Answer:
Answer: DGE analysis with LIMMA
9 weeks ago
Gordon Smyth
50k
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