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Answer: Answer: EdgeR - relationship between logFC and coefficients
7 days ago by Gordon Smyth ★ 7.2k
2
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1
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454
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Answer: Answer: Design matrix Differential expression analysis
13 days ago by Gordon Smyth ★ 7.2k
0
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0
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1.4k
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Answer: Answer: Differential Expression using Isoseq-supplemented reference transcriptome
18 days ago by Gordon Smyth ★ 7.2k
1
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1
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446
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Answer: Answer: Limma Analysis Agilent Microarray Data (GPL1708)
20 days ago by Gordon Smyth ★ 7.2k
0
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1
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295
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Answer: Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
20 days ago by Gordon Smyth ★ 7.2k
4
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1
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353
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Answer: Answer: How to use limma to find differentially expressed genes in response to a continu
20 days ago by Gordon Smyth ★ 7.2k
1
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0
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302
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Answer: Answer: Removing Illumina microarray probes with no expression HumanHT-12v4
26 days ago by Gordon Smyth ★ 7.2k
2
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1
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428
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Answer: Answer: differential gene expression analysis when not all samples have an untreated cou
29 days ago by Gordon Smyth ★ 7.2k
2
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0
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272
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Answer: Answer: Choosing an FC Threshold
7 weeks ago by Gordon Smyth ★ 7.2k
0
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1
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491
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Answer: Answer: 'Invalid parameter' error to generate a count matrix using featurecounts
8 weeks ago by Gordon Smyth ★ 7.2k
3
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3
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470
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Answer: Answer: Differential express genes in imbalance groups
8 weeks ago by Gordon Smyth ★ 7.2k
1
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0
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709
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Answer: Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
10 weeks ago by Gordon Smyth ★ 7.2k
1
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0
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1.3k
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Answer: Answer: MA graphs for EdgeR and Voom vary
10 weeks ago by Gordon Smyth ★ 7.2k
2
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0
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738
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Answer: Answer: Seeking Beginner-Friendly Resources for Deepening Understanding of Bioinformatic
10 weeks ago by Gordon Smyth ★ 7.2k
1
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1
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497
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Answer: Answer: Does the order of the batch variable matter in Limma design matrix?
8 weeks ago by Gordon Smyth ★ 7.2k
6
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1
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494
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Answer: Answer: Bayesian Differential Expression
3 months ago by Gordon Smyth ★ 7.2k
1
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0
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936
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Answer: Answer: EdgeR: upregulated with respect to what group?
3 months ago by Gordon Smyth ★ 7.2k
0
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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?
3 months ago by Gordon Smyth ★ 7.2k
0
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0
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916
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Answer: Answer: How do I work out which condition the genes are down-regulated in?
3 months ago by Gordon Smyth ★ 7.2k
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 ★ 7.2k
0
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0
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754
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Answer: Answer: logFoldChange computed by EdgeR different from naive log2FCcomputed based on rea
3 months ago by Gordon Smyth ★ 7.2k
2
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1
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1.1k
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Answer: Answer: Shrink logFC values after edgeR
3 months ago by Gordon Smyth ★ 7.2k
3
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1
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522
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Answer: Answer: Differing p-value cutoffs of limma derived DEGs in volcanoplots
3 months ago by Gordon Smyth ★ 7.2k
2
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1
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619
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Answer: Answer: Differential RNA editing using edgeR
4 months ago by Gordon Smyth ★ 7.2k
1
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2
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1.7k
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Answer: Answer: how to test for differential expression in samples where a global increase in ge
5 months ago by Gordon Smyth ★ 7.2k
2
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0
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1.6k
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Answer: Answer: Effect of Bootstrapping/Gibbs Sampling in Salmon Counts
5 months ago by Gordon Smyth ★ 7.2k
3
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1
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706
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Answer: Answer: Microarray data analysis with and without contrast
6 months ago by Gordon Smyth ★ 7.2k
1
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1
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6.7k
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Answer: Answer: Illumina HumanHT-12 V4.0 expression beadchip
6 months ago by Gordon Smyth ★ 7.2k
0
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0
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1.5k
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Answer: Answer: Laboratory Head Artificial Intelligence and Machine Learning (WEHI, Australia)
6 months ago by Gordon Smyth ★ 7.2k
1
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1
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812
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Answer: Answer: Use limma for correlation analysis of RNA-seqdata and continous trait
8 months ago by Gordon Smyth ★ 7.2k
2
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0
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2.1k
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Answer: Answer: Extracting Residuals from Differential Expression Model
8 months ago by Gordon Smyth ★ 7.2k
1
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1
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627
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Answer: Answer: DGEList error in EdgeR - Warning: Error in $: $ operator is invalid for atomic v
9 months ago by Gordon Smyth ★ 7.2k
0
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2
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1.2k
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Answer: Answer: Is RSEM required for RNA-seq data analysis using STAR and edgeR?
10 months ago by Gordon Smyth ★ 7.2k
1
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0
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1.3k
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Answer: Answer: Comparing P-Values & FDR adjusted p-values between RNA-Seq experiments?
10 months ago by Gordon Smyth ★ 7.2k
1
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1
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1.7k
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Answer: Answer: bar chart to show a p value of 0
10 months ago by Gordon Smyth ★ 7.2k
2
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1
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2.4k
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Answer: Answer: How do I correctly format my limma/eBayes code?
11 months ago by Gordon Smyth ★ 7.2k
0
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0
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1.4k
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Answer: Answer: How do I run DE for TPM values (not CPM)?
11 months ago by Gordon Smyth ★ 7.2k
2
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1
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2.7k
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Answer: Answer: Limma returned only positive logFC values
11 months ago by Gordon Smyth ★ 7.2k
2
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0
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829
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Answer: Answer: coef /makeContrasts very different results
12 months ago by Gordon Smyth ★ 7.2k
1
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1
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1.1k
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Answer: Answer: Having problem on doing edgeR anlysis- cant create the DGE list through readbism
12 months ago by Gordon Smyth ★ 7.2k
5
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1
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1.4k
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Answer: Answer: LIMMA: where to find the ANOVA?
12 months ago by Gordon Smyth ★ 7.2k
2
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1
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3.8k
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Answer: Answer: edgeR, Pseudobulk scRNA-seq
13 months ago by Gordon Smyth ★ 7.2k
0
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1
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618
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Answer: Answer: Is it possible to use limma to simultaneously analyze RNA-seq and gene expressio
13 months ago by Gordon Smyth ★ 7.2k
8
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1
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4.5k
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Answer: Answer: What are the advantages of using the T2T as a reference vs GRCh38 today?
13 months ago by Gordon Smyth ★ 7.2k
4
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1
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2.2k
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Answer: Answer: Limma: is it necessary to log-transform the data?
12 months ago by Gordon Smyth ★ 7.2k
0
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0
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573
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Answer: Answer: "align" in rsubread only reading 1 out of 6 of my input files
13 months ago by Gordon Smyth ★ 7.2k
4
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0
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1.1k
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Answer: Answer: RNA-seq analysis without replicates
13 months ago by Gordon Smyth ★ 7.2k
7
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1
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985
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Answer: Answer: How to "guess" the transformation based on already-transformed, "normalized coun
13 months ago by Gordon Smyth ★ 7.2k
3
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0
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645
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Answer: Answer: How to Merge RNA Replicates
13 months ago by Gordon Smyth ★ 7.2k
2
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1
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809
views
Answer: Answer: suprisingly high logFC using limma
13 months ago by Gordon Smyth ★ 7.2k
287 results • Page 1 of 6
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