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Comment: Comment: Limma Analysis Agilent Microarray Data (GPL1708)
3 days ago by Gordon Smyth ★ 7.1k
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0
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1.3k
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Answer: Answer: Differential Expression using Isoseq-supplemented reference transcriptome
4 days ago by Gordon Smyth ★ 7.1k
1
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1
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382
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Answer: Answer: Limma Analysis Agilent Microarray Data (GPL1708)
5 days ago by Gordon Smyth ★ 7.1k
0
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1
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252
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Answer: Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
6 days ago by Gordon Smyth ★ 7.1k
4
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1
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296
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Answer: Answer: How to use limma to find differentially expressed genes in response to a continu
6 days ago by Gordon Smyth ★ 7.1k
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0
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252
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Comment: Comment: permutation test in edgeR
10 days ago by Gordon Smyth ★ 7.1k
1
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0
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435
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Comment: Comment: Difference when using difference number of pathways score to compare between 3 g
12 days ago by Gordon Smyth ★ 7.1k
1
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0
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273
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Answer: Answer: Removing Illumina microarray probes with no expression HumanHT-12v4
12 days ago by Gordon Smyth ★ 7.1k
2
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1
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396
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Answer: Answer: differential gene expression analysis when not all samples have an untreated cou
15 days ago by Gordon Smyth ★ 7.1k
1
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1
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426
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Comment: Comment: Limma compare between 3 conditions vs 2 conditions
15 days ago by Gordon Smyth ★ 7.1k
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0
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263
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Answer: Answer: Choosing an FC Threshold
5 weeks ago by Gordon Smyth ★ 7.1k
1
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0
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1.0k
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Comment: Comment: Shrink logFC values after edgeR
5 weeks ago by Gordon Smyth ★ 7.1k
0
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1
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475
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Comment: Comment: 'Invalid parameter' error to generate a count matrix using featurecounts
6 weeks ago by Gordon Smyth ★ 7.1k
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1
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475
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Answer: Answer: 'Invalid parameter' error to generate a count matrix using featurecounts
6 weeks ago by Gordon Smyth ★ 7.1k
1
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0
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449
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Comment: Comment: Differential express genes in imbalance groups
6 weeks ago by Gordon Smyth ★ 7.1k
3
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3
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449
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Answer: Answer: Differential express genes in imbalance groups
6 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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218
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Comment: Comment: Computing mid parent value for DE analysis
7 weeks ago by Gordon Smyth ★ 7.1k
1
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0
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665
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Answer: Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
8 weeks ago by Gordon Smyth ★ 7.1k
1
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0
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1.2k
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Answer: Answer: MA graphs for EdgeR and Voom vary
8 weeks ago by Gordon Smyth ★ 7.1k
2
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0
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1.0k
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Comment: Comment: Shrink logFC values after edgeR
8 weeks ago by Gordon Smyth ★ 7.1k
2
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0
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726
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Answer: Answer: Seeking Beginner-Friendly Resources for Deepening Understanding of Bioinformatic
8 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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466
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Comment: Comment: Does the order of the batch variable matter in Limma design matrix?
8 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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3.8k
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Comment: Comment: Can one plot % of variance using the plotMDS function?
8 weeks ago by Gordon Smyth ★ 7.1k
1
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1
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466
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Answer: Answer: Does the order of the batch variable matter in Limma design matrix?
6 weeks ago by Gordon Smyth ★ 7.1k
6
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1
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480
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Answer: Answer: Bayesian Differential Expression
10 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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453
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Comment: Comment: filtering lowly expressed reads
12 weeks ago by Gordon Smyth ★ 7.1k
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0
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237
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Comment: Comment: Design matrix after RUVg correction
12 weeks ago by Gordon Smyth ★ 7.1k
2
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0
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2.8k
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Comment: Comment: Converting LogCPM to raw counts for DESEQ2
12 weeks ago by Gordon Smyth ★ 7.1k
1
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0
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920
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Answer: Answer: EdgeR: upregulated with respect to what group?
12 weeks ago by Gordon Smyth ★ 7.1k
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0
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1.3k
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Answer: Answer: Is there a program to average read counts from technical replicates?
12 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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904
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Comment: Comment: How do I work out which condition the genes are down-regulated in?
12 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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904
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Answer: Answer: How do I work out which condition the genes are down-regulated in?
12 weeks ago by Gordon Smyth ★ 7.1k
0
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0
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1.6k
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Answer: Answer: positive and negative Fold Change glmLRT test
3 months ago by Gordon Smyth ★ 7.1k
0
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0
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742
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Answer: Answer: logFoldChange computed by EdgeR different from naive log2FCcomputed based on rea
3 months ago by Gordon Smyth ★ 7.1k
2
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1
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1.0k
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Answer: Answer: Shrink logFC values after edgeR
3 months ago by Gordon Smyth ★ 7.1k
1
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1
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488
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Comment: Comment: Differing p-value cutoffs of limma derived DEGs in volcanoplots
3 months ago by Gordon Smyth ★ 7.1k
3
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1
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488
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Answer: Answer: Differing p-value cutoffs of limma derived DEGs in volcanoplots
3 months ago by Gordon Smyth ★ 7.1k
0
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0
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306
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Comment: Comment: Monotonic genes in results of differential gene expression analysis
3 months ago by Gordon Smyth ★ 7.1k
1
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0
replies
277
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Comment: Comment: Gene expression of microarray data
3 months ago by Gordon Smyth ★ 7.1k
0
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1
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579
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Comment: Comment: Differential RNA editing using edgeR
3 months ago by Gordon Smyth ★ 7.1k
2
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1
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579
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Answer: Answer: Differential RNA editing using edgeR
3 months ago by Gordon Smyth ★ 7.1k
0
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1
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515
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Comment: Comment: how to start DEG analysis after featurecounts
3 months ago by Gordon Smyth ★ 7.1k
0
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0
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1.6k
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Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
0
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1
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1.6k
views
Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
0
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0
replies
1.6k
views
Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
0
votes
1
reply
1.6k
views
Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
1
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0
replies
1.6k
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Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
1
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1
reply
1.6k
views
Comment: Comment: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
1
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2
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1.6k
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Answer: Answer: how to test for differential expression in samples where a global increase in ge
4 months ago by Gordon Smyth ★ 7.1k
2
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0
replies
1.6k
views
Answer: Answer: Effect of Bootstrapping/Gibbs Sampling in Salmon Counts
4 months ago by Gordon Smyth ★ 7.1k
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