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Answer: Answer: limma + voom combine voomWithQualityWeights and duplicateCorrelation
6 months ago Gordon Smyth 50k
0
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0
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819
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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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1
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675
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Answer: Answer: DecideTest vs topTAGs in edgeR
6 months ago Gordon Smyth 50k
0
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1
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835
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Answer: Answer: Limma continuous design (association polygenic risk score with gene expression)
6 months ago Gordon Smyth 50k
3
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1
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972
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Answer: Answer: [Bug] Segfault in edgeR::cpm
7 months ago Gordon Smyth 50k
1
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0
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407
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Answer: Answer: "Details" section for specific software packages
7 months ago Gordon Smyth 50k
0
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0
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901
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Answer: Answer: edgeR heatmap construction and interpretation
7 months ago Gordon Smyth 50k
0
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0
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970
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Answer: Answer: minfi, limma, adjusting for cell counts - integrating the resoults of estimateC
7 months ago Gordon Smyth 50k
0
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0
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453
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Answer: Answer: Issue with weights in voomLmFit()
7 months ago Gordon Smyth 50k
2
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0
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878
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Answer: Answer: limma::topTable with adjust.method=NULL is not BH corrected (manual is inconsist
7 months ago Gordon Smyth 50k
0
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1
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878
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Answer: Answer: DuplicateCorrelation() block by duplicate sample or by cell line ?
7 months ago Gordon Smyth 50k
4
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1
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723
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Answer: Answer: limma: More differentially expressed genes when factor included in model than wh
7 months ago Gordon Smyth 50k
3
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3
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1.3k
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Answer: Answer: Batch correction and repeated measures
7 months ago Gordon Smyth 50k
0
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0
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439
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Answer: Answer: ''Model_Matrix'' error
7 months ago Gordon Smyth 50k
0
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0
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762
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Answer: Answer: MDS plot edgeR
8 months ago Gordon Smyth 50k
1
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1
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830
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Answer: Answer: Should I use CPM or Voom transformed values for downstream analysis?
8 months ago Gordon Smyth 50k
1
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1
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496
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Answer: Answer: RRID (unique searchable Research Resource Identifier ) of LymphoSeq
8 months ago Gordon Smyth 50k
1
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0
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1.7k
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Answer: Answer: TPM from STAR mapped counts
8 months ago Gordon Smyth 50k
1
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1
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758
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Answer: Answer: Why do I obtain Identical Adj.P value when running edgeR ?
8 months ago Gordon Smyth 50k
0
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1
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868
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Answer: Answer: Help with model.matrix and creating the right contrast matrix for limma
8 months ago Gordon Smyth 50k
2
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1
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571
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Answer: Answer: EdgeR and DESeq2, variance estimation and parametric test
8 months ago Gordon Smyth 50k
3
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1
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892
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Answer: Answer: Phenotype effect - building a contrast matrix - grouping vs interaction
8 months ago Gordon Smyth 50k
0
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1
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535
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Answer: Answer: Rsubread: .bai file lacks data for `samtools idxstats`
8 months ago Gordon Smyth 50k
0
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1
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696
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Answer: Answer: edgeR design/contrast matrix troubles
8 months ago Gordon Smyth 50k
0
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1
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953
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Answer: Answer: Limma dispersed distribution of log fold change
8 months ago Gordon Smyth 50k
1
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0
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841
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Answer: Answer: Import Salmon data with tximport and pool technical replicates
8 months ago Gordon Smyth 50k
0
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1
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863
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Answer: Answer: How long does it usually take to complete dream() from start to finish?
8 months ago Gordon Smyth 50k
0
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1
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1.4k
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Answer: Answer: Question about filterByExpr function edgeR
9 months ago Gordon Smyth 50k
0
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1
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597
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Answer: Answer: Is it possible to extract the expression of a single group without making compar
9 months ago Gordon Smyth 50k
0
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0
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499
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Answer: Answer: How to incorporate covariate factors into design to analyse a continuous varia
9 months ago Gordon Smyth 50k
1
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1
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666
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Answer: Answer: Can CAMERA analyze just one particular pathway
9 months ago Gordon Smyth 50k
1
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2
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1.1k
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Answer: Answer: All three of the sites where genomeinfodbdata R packages are stored appear to be
9 months ago Gordon Smyth 50k
0
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0
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397
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Answer: Answer: con vs treated group miRNA comparison using limma
9 months ago Gordon Smyth 50k
0
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0
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502
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Answer: Answer: EdgeR FTest
9 months ago Gordon Smyth 50k
2
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1
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1.4k
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Answer: Answer: removing the batch effect for vst counts and defining the batches in removeBatch
9 months ago Gordon Smyth 50k
1
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1
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883
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Answer: Answer: Recommendation for large.n in filterByExpr
9 months ago Gordon Smyth 50k
0
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1
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712
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Answer: Answer: EdgeR and repeated measures: how to design a correct matrix having three time po
9 months ago Gordon Smyth 50k
1
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0
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409
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Answer: Answer: A query about selecting the coefficient in glmLRT to test for by index
9 months ago Gordon Smyth 50k
0
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0
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875
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Answer: Answer: estimateDisp() error
9 months ago Gordon Smyth 50k
1
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1
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1.1k
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Answer: Answer: Custom design for scRNA DGE with pseudobulking
9 months ago Gordon Smyth 50k
4
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2
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885
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Answer: Answer: ASpli checks fail on Linux due to missing dependency to statmod
9 months ago Gordon Smyth 50k
4
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1
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797
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Answer: Answer: Adding a group of samples reduces DEGs in other groups
9 months ago Gordon Smyth 50k
1
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1
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851
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Answer: Answer: loading scores using plotMDS in limma
9 months ago Gordon Smyth 50k
2
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0
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737
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Answer: Answer: Grouping DEGs yields varying results
9 months ago Gordon Smyth 50k
0
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1
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810
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Answer: Answer: Questionable limma results for differential expression on RNA-seq
9 months ago Gordon Smyth 50k
2
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1
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1.4k
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Answer: Answer: Question about RNAseq analysis in EdgeR to identify common and donor specific di
10 months ago Gordon Smyth 50k
0
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1
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643
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Answer: Answer: smallRNA-seq analysis batch correction in limma
10 months ago Gordon Smyth 50k
1
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0
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465
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Answer: Answer: For limma, if I leave coef=NULL, which test is the P value for?
10 months ago Gordon Smyth 50k
0
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0
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650
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Answer: Answer: Fluidigm Data Batch Correction
10 months ago Gordon Smyth 50k
1
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0
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1.0k
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Answer: Answer: How to do GSEA over limma + voom DGE ?
10 months ago Gordon Smyth 50k
2,680 results • Page 3 of 54
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