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Answer: Answer: limma model matrix questions
11 weeks ago Gordon Smyth 50k
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323
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Answer: Answer: Limma with replicates at different time points
11 weeks ago Gordon Smyth 50k
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220
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Answer: Answer: Main effect on multiple comparisons in limma
11 weeks ago Gordon Smyth 50k
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417
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Answer: Answer: edgeR: DEGs in a CRD factorial (2x2x2)
11 weeks ago Gordon Smyth 50k
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400
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Answer: Answer: Confusion about LFC using contrasts weights in EdgeR
11 weeks ago Gordon Smyth 50k
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304
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Answer: Answer: Normalization factors when there is a possible unidirectional expression
11 weeks ago Gordon Smyth 50k
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643
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Answer: Answer: Divergent results using exact, glmLRT, and glmQLF tests in edgeR
12 weeks ago • updated 11 weeks ago Gordon Smyth 50k
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359
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Answer: Answer: CAMERA + Gene Ontology Gene Sets
12 weeks ago Gordon Smyth 50k
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437
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Answer: Answer: How does one test for interactions in EdgeR?
12 weeks ago Gordon Smyth 50k
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374
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Answer: Answer: limma with interaction term
12 weeks ago Gordon Smyth 50k
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298
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Answer: Answer: Design matrix after RUVg correction
12 weeks ago Gordon Smyth 50k
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330
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Answer: Answer: Longitudinal analysis in Limma
12 weeks ago Gordon Smyth 50k
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354
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Answer: Answer: Nested paired design
12 weeks ago Gordon Smyth 50k
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328
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Answer: Answer: How to get normalized values for methylation counts in edgeR
12 weeks ago Gordon Smyth 50k
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292
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Answer: Answer: Limma design for 3 replicated time courses comparing treatment vs placebo
3 months ago Gordon Smyth 50k
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414
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Answer: Answer: limma design model for categorical variable
3 months ago Gordon Smyth 50k
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360
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Answer: Answer: voom with quality weights after RUV correction
3 months ago Gordon Smyth 50k
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266
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Answer: Answer: Pairwise analysis of DESeq result and limma result
3 months ago Gordon Smyth 50k
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435
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Answer: Answer: goseq, warning and strange plot from nullp
3 months ago Gordon Smyth 50k
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1.0k
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Answer: Answer: Packages don't update, but no error or warning is thrown
3 months ago Gordon Smyth 50k
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350
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Answer: Answer: Longitudinal analysis in Limma
3 months ago Gordon Smyth 50k
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444
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Answer: Answer: Adjusting featureCounts settings in Galaxy for miRNA overlaps
3 months ago Gordon Smyth 50k
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299
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Answer: Answer: Using limma for controlling age variable
3 months ago Gordon Smyth 50k
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278
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Answer: Answer: Question about DMRcate
3 months ago Gordon Smyth 50k
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757
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Answer: Answer: [BUG] Rsubread::featureCounts quirk in CORE files: different target list orderin
3 months ago Gordon Smyth 50k
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549
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Answer: Answer: edgeR error "Design matrix not of full rank"
3 months ago Gordon Smyth 50k
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270
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Answer: Answer: Problems with Feature counting
3 months ago Gordon Smyth 50k
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596
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Answer: Answer: Does EdgeR trimmed mean of M values (TMM) account for gene length?
3 months ago Gordon Smyth 50k
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557
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Answer: Answer: Monotonic genes in results of differential gene expression analysis
3 months ago Gordon Smyth 50k
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344
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Answer: Answer: EdgeR for methylation analysis when there is no replicates
3 months ago Gordon Smyth 50k
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683
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Answer: Answer: EdgeR: Should I include all samples/conditions in my dispersion estimation while
3 months ago Gordon Smyth 50k
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604
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Answer: Answer: filtering lowly expressed reads
3 months ago Gordon Smyth 50k
3
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304
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Answer: Answer: Dataset imbalance
3 months ago Gordon Smyth 50k
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1.1k
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Answer: Answer: RNAseq paired-sample differantial expression analysis with many samples
3 months ago Gordon Smyth 50k
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312
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Answer: Answer: download problem
4 months ago • updated 3 months ago Gordon Smyth 50k
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332
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Answer: Answer: Group comparison with one sample
4 months ago Gordon Smyth 50k
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622
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Answer: Answer: Help with model for differential expression analysis
4 months ago Gordon Smyth 50k
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468
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Answer: Answer: How to perform longitudinal analysis using EdgeR
4 months ago Gordon Smyth 50k
2
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305
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Answer: Answer: removeBatchEffect with non-linear model fit
4 months ago Gordon Smyth 50k
2
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637
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Answer: Answer: Correct the batch effect in methylation analysis in R
4 months ago Gordon Smyth 50k
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418
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Answer: Answer: Agilent Microarray Gene Oncology analysis gone wrong
4 months ago Gordon Smyth 50k
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467
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Answer: Answer: Assess fit of variance prior
5 months ago • updated 4 months ago Gordon Smyth 50k
3
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561
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Answer: Answer: Filter genes by expression for voomLmFit
5 months ago Gordon Smyth 50k
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443
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Answer: Answer: RNASeq time course analysis, missing time points for control
5 months ago Gordon Smyth 50k
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424
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Answer: Answer: EdgeR: Exact test and glmQLFTest produce very different results
5 months ago Gordon Smyth 50k
2
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535
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Answer: Answer: Is it appropriate to apply linear mixed models to Voom transformed data?
5 months ago Gordon Smyth 50k
2
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611
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Answer: Answer: limma + voom combine voomWithQualityWeights and duplicateCorrelation
5 months ago Gordon Smyth 50k
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798
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Answer: Answer: Bioinformatics Laboratory Head in AI or machine learning (WEHI, Australia)
6 months ago Gordon Smyth 50k
3
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635
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Answer: Answer: DecideTest vs topTAGs in edgeR
6 months ago Gordon Smyth 50k
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812
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Answer: Answer: Limma continuous design (association polygenic risk score with gene expression)
6 months ago Gordon Smyth 50k
2,676 results • Page 2 of 54
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