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Answer: Answer: Conceptual and statistical help in creating a synthetic RNAseq cohort from a rea
4 hours ago by Gordon Smyth ★ 7.7k
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638
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Comment: Comment: Feature Counts - potential bug with outfile.jcounts
3 days ago by Gordon Smyth ★ 7.7k
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426
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Comment: Comment: Is this featureCounts output normal, and how can I process it for DESeq2 analysi
20 days ago by Gordon Smyth ★ 7.7k
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426
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Answer: Answer: Is this featureCounts output normal, and how can I process it for DESeq2 analysi
20 days ago by Gordon Smyth ★ 7.7k
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514
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Comment: Comment: Handling Negative Values in Log-Transformed a Dataset for Differential Expressi
23 days ago by Gordon Smyth ★ 7.7k
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384
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Answer: Answer: Biostatistics
23 days ago by Gordon Smyth ★ 7.7k
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514
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Comment: Comment: Handling Negative Values in Log-Transformed a Dataset for Differential Expressi
24 days ago by Gordon Smyth ★ 7.7k
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647
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Answer: Answer: how to run limma for large datasets
28 days ago by Gordon Smyth ★ 7.7k
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688
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Answer: Answer: [construct a model.matrix ]
28 days ago by Gordon Smyth ★ 7.7k
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514
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Answer: Answer: Handling Negative Values in Log-Transformed a Dataset for Differential Expressi
28 days ago by Gordon Smyth ★ 7.7k
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604
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Answer: Answer: gene ID to gene symbol in R
7 weeks ago by Gordon Smyth ★ 7.7k
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656
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Comment: Comment: Which Should Take Priority When Selecting DEGs: FDR or Log Fold Change?
8 weeks ago by Gordon Smyth ★ 7.7k
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656
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Answer: Answer: Which Should Take Priority When Selecting DEGs: FDR or Log Fold Change?
8 weeks ago by Gordon Smyth ★ 7.7k
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833
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Answer: Answer: How does edgeR's filterByExpr work?
11 weeks ago by Gordon Smyth ★ 7.7k
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833
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Comment: Comment: How does edgeR's filterByExpr work?
10 weeks ago by Gordon Smyth ★ 7.7k
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1.3k
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Comment: Comment: Does the order of the batch variable matter in Limma design matrix?
12 weeks ago by Gordon Smyth ★ 7.7k
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1.1k
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Comment: Comment: Kallisto: to scaledTPM or not to scaledTPM
12 weeks ago by Gordon Smyth ★ 7.7k
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1.1k
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Comment: Comment: Kallisto: to scaledTPM or not to scaledTPM
3 months ago by Gordon Smyth ★ 7.7k
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2
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1.1k
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Comment: Comment: Kallisto: to scaledTPM or not to scaledTPM
3 months ago by Gordon Smyth ★ 7.7k
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1
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1.1k
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Answer: Answer: Kallisto: to scaledTPM or not to scaledTPM
3 months ago by Gordon Smyth ★ 7.7k
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679
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Comment: Comment: Seeking Advice on Using `edgeR` and `variancePartition` for RNA-seq Data with Mu
3 months ago by Gordon Smyth ★ 7.7k
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533
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Comment: Comment: EdgeR gmlQLF with low number of genes
3 months ago by Gordon Smyth ★ 7.7k
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2
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533
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Answer: Answer: EdgeR gmlQLF with low number of genes
4 months ago by Gordon Smyth ★ 7.7k
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0
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928
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Comment: Comment: gene expression normaliztion
4 months ago by Gordon Smyth ★ 7.7k
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510
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Answer: Answer: Bulk RNA seq analysis on multiple conditions (4)
updated 4 months ago by 44k • written 4 months ago by ★ 7.7k
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555
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Comment: Comment: Pathway analysis for DGEList
5 months ago by Gordon Smyth ★ 7.7k
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693
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Comment: Comment: Adjusting for covariates such as duration of diabetes, age, sex and BMI
5 months ago by Gordon Smyth ★ 7.7k
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928
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Answer: Answer: gene expression normaliztion
5 months ago by Gordon Smyth ★ 7.7k
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1
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472
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Answer: Answer: edgeR batch effect model matrix sanity check
6 months ago by Gordon Smyth ★ 7.7k
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368
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Comment: Comment: Design model matrix with limma with cell different proportions estimates and bat
6 months ago by Gordon Smyth ★ 7.7k
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1.9k
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Answer: Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
6 months ago by Gordon Smyth ★ 7.7k
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444
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Answer: Answer: RNAseq coverage vs depth for transcript isoform expression?
6 months ago by Gordon Smyth ★ 7.7k
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524
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Answer: Answer: EdgeR - relationship between logFC and coefficients
7 months ago by Gordon Smyth ★ 7.7k
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1
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754
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Comment: Comment: Design matrix Differential expression analysis
7 months ago by Gordon Smyth ★ 7.7k
2
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1
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754
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Answer: Answer: Design matrix Differential expression analysis
7 months ago by Gordon Smyth ★ 7.7k
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750
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Comment: Comment: Limma Analysis Agilent Microarray Data (GPL1708)
7 months ago by Gordon Smyth ★ 7.7k
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2.0k
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Answer: Answer: Differential Expression using Isoseq-supplemented reference transcriptome
7 months ago by Gordon Smyth ★ 7.7k
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1
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750
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Answer: Answer: Limma Analysis Agilent Microarray Data (GPL1708)
7 months ago by Gordon Smyth ★ 7.7k
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1
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555
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Answer: Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
7 months ago by Gordon Smyth ★ 7.7k
4
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1
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833
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Answer: Answer: How to use limma to find differentially expressed genes in response to a continu
7 months ago by Gordon Smyth ★ 7.7k
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482
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Comment: Comment: permutation test in edgeR
7 months ago by Gordon Smyth ★ 7.7k
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0
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599
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Comment: Comment: Difference when using difference number of pathways score to compare between 3 g
7 months ago by Gordon Smyth ★ 7.7k
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0
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454
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Answer: Answer: Removing Illumina microarray probes with no expression HumanHT-12v4
7 months ago by Gordon Smyth ★ 7.7k
2
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1
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671
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Answer: Answer: differential gene expression analysis when not all samples have an untreated cou
7 months ago by Gordon Smyth ★ 7.7k
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1
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601
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Comment: Comment: Limma compare between 3 conditions vs 2 conditions
8 months ago by Gordon Smyth ★ 7.7k
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0
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428
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Answer: Answer: Choosing an FC Threshold
8 months ago by Gordon Smyth ★ 7.7k
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1.8k
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Comment: Comment: Shrink logFC values after edgeR
8 months ago by Gordon Smyth ★ 7.7k
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1
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877
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Comment: Comment: 'Invalid parameter' error to generate a count matrix using featurecounts
8 months ago by Gordon Smyth ★ 7.7k
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1
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877
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Answer: Answer: 'Invalid parameter' error to generate a count matrix using featurecounts
8 months ago by Gordon Smyth ★ 7.7k
1
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0
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805
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Comment: Comment: Differential express genes in imbalance groups
8 months ago by Gordon Smyth ★ 7.7k
538 results • Page 1 of 11
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