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Comment: C: Combining newer/older RNAseq data, batch correcting
9.1 years ago Aaron Lun ★ 29k
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Comment: C: Paired RNA-seq experiment with 3 factors using duplicateCorrelation
9.1 years ago Aaron Lun ★ 29k
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Answer: A: Combining newer/older RNAseq data, batch correcting
9.1 years ago Aaron Lun ★ 29k
2
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1
reply
1.6k
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Answer: A: Paired RNA-seq experiment with 3 factors using duplicateCorrelation
9.1 years ago Aaron Lun ★ 29k
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1.6k
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Comment: C: Paired RNA-seq experiment with 3 factors using duplicateCorrelation
9.1 years ago Aaron Lun ★ 29k
6
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Answer: A: DE for genes with very low counts using limma.
9.1 years ago Aaron Lun ★ 29k
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Comment: C: duplicateCorrelation and Pearson Correlation
9.1 years ago Aaron Lun ★ 29k
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Answer: A: duplicateCorrelation and Pearson Correlation
9.1 years ago Aaron Lun ★ 29k
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Answer: A: KEGG pathway analysis on a predefined set of genes (with my own annotation)?
9.1 years ago Aaron Lun ★ 29k
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1.8k
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Answer: A: Attaching existing double* pointer to newly created R's SEXP struct in C/C++
9.1 years ago Aaron Lun ★ 29k
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1.6k
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Answer: A: FPKM normalization questions!
9.1 years ago Aaron Lun ★ 29k
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3.2k
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Comment: C: edgeR with unequal no.of replicate
9.1 years ago Aaron Lun ★ 29k
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Comment: C: EdgeR design and contrasts questions
9.1 years ago Aaron Lun ★ 29k
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3.6k
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Comment: C: Which formula should I use to set the best model matrix for my analysis ?
9.1 years ago Aaron Lun ★ 29k
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1.5k
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Answer: A: EdgeR design and contrasts questions
9.1 years ago Aaron Lun ★ 29k
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Comment: C: Usability of ERCC spike-ins in standard RNAseq experiments
9.1 years ago Aaron Lun ★ 29k
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3.6k
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Comment: C: Which formula should I use to set the best model matrix for my analysis ?
9.1 years ago Aaron Lun ★ 29k
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3.0k
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Answer: A: Removing GC content bias and trended bias from ChIP-seq data
9.1 years ago Aaron Lun ★ 29k
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3.6k
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Comment: C: Which formula should I use to set the best model matrix for my analysis ?
9.1 years ago Aaron Lun ★ 29k
4
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3.6k
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Answer: A: Which formula should I use to set the best model matrix for my analysis ?
9.1 years ago Aaron Lun ★ 29k
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1
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2.9k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
9.1 years ago Aaron Lun ★ 29k
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2.9k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
9.1 years ago Aaron Lun ★ 29k
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1.6k
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Comment: C: Design matrix and contrast for RNA knockdown experiment
9.1 years ago Aaron Lun ★ 29k
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1.6k
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Comment: C: Design matrix and contrast for RNA knockdown experiment
9.1 years ago Aaron Lun ★ 29k
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1.6k
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Comment: C: Design matrix and contrast for RNA knockdown experiment
9.1 years ago Aaron Lun ★ 29k
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1.7k
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Comment: C: Problem in finding NB dispersion for my HiC datasets
9.1 years ago Aaron Lun ★ 29k
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1.4k
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Comment: C: differential expression analysis in edgeR when you have 2 experiments and batch
9.1 years ago Aaron Lun ★ 29k
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1.4k
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Comment: C: differential expression analysis in edgeR when you have 2 experiments and batch
9.1 years ago Aaron Lun ★ 29k
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2.9k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
9.1 years ago Aaron Lun ★ 29k
1
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1
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1.4k
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Answer: A: differential expression analysis in edgeR when you have 2 experiments and batch
9.1 years ago Aaron Lun ★ 29k
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1
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1.9k
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Answer: A: How to remove nested batch effects with removeBatchEffect?
9.1 years ago Aaron Lun ★ 29k
4
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Answer: A: Limma, remove batch effects and technical replicates
9.1 years ago Aaron Lun ★ 29k
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1.4k
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Comment: C: the output DEGs of limma analyzing RNA-seq data is just 1/3 of those by Tophat-C
9.1 years ago Aaron Lun ★ 29k
0
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2.9k
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Answer: A: edgeR: AveLogCPM after estimateGLMCommonDisp
9.1 years ago Aaron Lun ★ 29k
4
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1
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1.6k
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Answer: A: Design matrix and contrast for RNA knockdown experiment
9.1 years ago Aaron Lun ★ 29k
0
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1.7k
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Comment: C: Problem in finding NB dispersion for my HiC datasets
9.1 years ago Aaron Lun ★ 29k
1
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1
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1.9k
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Answer: A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
9.1 years ago Aaron Lun ★ 29k
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1.9k
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Comment: C: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
9.1 years ago Aaron Lun ★ 29k
1
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1
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1.7k
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Answer: A: Limma DE analysis using all microarray or subset of interest microarray
9.1 years ago Aaron Lun ★ 29k
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1.2k
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Comment: C: EdgeR, between/within subject comparisons
9.1 years ago Aaron Lun ★ 29k
3
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1.2k
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Answer: A: EdgeR, between/within subject comparisons
9.1 years ago Aaron Lun ★ 29k
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2.5k
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Comment: C: csaw autosim.R: Error in crunch2BAM(fnames): failed to sort BAM file
9.1 years ago Aaron Lun ★ 29k
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2.5k
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Comment: C: csaw autosim.R: Error in crunch2BAM(fnames): failed to sort BAM file
9.1 years ago Aaron Lun ★ 29k
1
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2.2k
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Comment: C: How to account for population variation within regions in EdgeR?
9.1 years ago Aaron Lun ★ 29k
2
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1
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2.5k
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Answer: A: csaw autosim.R: Error in crunch2BAM(fnames): failed to sort BAM file
9.1 years ago Aaron Lun ★ 29k
1
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0
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3.3k
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Comment: C: [EdgeR] question about the y$samples$lib.size and y$samples$norm.factors
9.1 years ago Aaron Lun ★ 29k
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3.6k
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Comment: C: limma-voom or edgeR for paired designs both within and between comparisons
9.1 years ago Aaron Lun ★ 29k
0
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1
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2.2k
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Comment: C: How to account for population variation within regions in EdgeR?
9.1 years ago Aaron Lun ★ 29k
0
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1
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2.2k
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Comment: C: How to account for population variation within regions in EdgeR?
9.1 years ago Aaron Lun ★ 29k
0
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1
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2.2k
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Comment: C: How to account for population variation within regions in EdgeR?
9.1 years ago Aaron Lun ★ 29k
2,880 results • Page 33 of 58
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