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7.3k
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
6.4 years ago Aaron Lun ★ 29k
0
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0
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1.2k
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Comment: C: emptyDrops result is full NAs
6.4 years ago Aaron Lun ★ 29k
1
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1
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978
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Answer: A: cross-array comparison using limma fitted values
6.4 years ago Aaron Lun ★ 29k
3
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1
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1.7k
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Answer: A: Is logFC a log2 fold change or some other base in scran::findMarkers
6.4 years ago Aaron Lun ★ 29k
3
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1
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2.3k
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Answer: A: single cell data: adding random effects for subject with multilevel experiment d
6.5 years ago Aaron Lun ★ 29k
0
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1
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1.1k
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Answer: A: Sanity Checking Mixed Factorial Proteomics Analysis Workflow Using Limma
6.5 years ago Aaron Lun ★ 29k
0
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0
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3.6k
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Comment: C: logCPM to CPM conversion after removeBatchEffect()
6.5 years ago Aaron Lun ★ 29k
1
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1
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3.6k
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Comment: C: logCPM to CPM conversion after removeBatchEffect()
6.5 years ago Aaron Lun ★ 29k
3
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1
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3.6k
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Answer: A: logCPM to CPM conversion after removeBatchEffect()
6.5 years ago Aaron Lun ★ 29k
0
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0
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3.3k
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Comment: C: limma - blocking or regressing out nuisance variable
6.5 years ago Aaron Lun ★ 29k
0
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1
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3.6k
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Comment: C: logCPM to CPM conversion after removeBatchEffect()
6.5 years ago Aaron Lun ★ 29k
1
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0
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2.2k
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Answer: A: Troubles with barcodeRanks()
6.5 years ago Aaron Lun ★ 29k
0
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1
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2.2k
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Comment: C: Troubles with barcodeRanks()
6.5 years ago Aaron Lun ★ 29k
1
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1
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1.4k
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Answer: A: Interpreting Fold Change Calculation in Limma to Non-Statisticians: Sanity Check
6.5 years ago Aaron Lun ★ 29k
0
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1
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5.0k
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Comment: C: Help: how to use wilcox.test with a SummarizedExperiment object?
6.5 years ago Aaron Lun ★ 29k
2
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0
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1.6k
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Answer: A: scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_l
6.5 years ago Aaron Lun ★ 29k
3
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0
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785
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Answer: A: Meta-Analysis: Start with counts?
6.5 years ago Aaron Lun ★ 29k
1
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1
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2.5k
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Answer: A: Differential gene expression using edgeR and using a generalised linear model (
6.5 years ago Aaron Lun ★ 29k
0
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1
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1.7k
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Answer: A: Scalability of emptyDrops() running times
6.5 years ago Aaron Lun ★ 29k
1
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1
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1.2k
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Answer: A: Call DE genes on Unbalanced design with controls
6.5 years ago Aaron Lun ★ 29k
1
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1
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13k
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Answer: A: Seurat 2.3.4 installation
6.5 years ago Aaron Lun ★ 29k
0
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0
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4.1k
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Comment: C: Use of batch corrected (removeBatchEffect) read counts for further downstream an
6.5 years ago Aaron Lun ★ 29k
0
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1
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3.1k
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Comment: C: Correct use of tximport in combination with edgeR cpm()
6.5 years ago Aaron Lun ★ 29k
1
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1
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4.5k
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Comment: C: Gene expression associated with continuous (quantitative) traits (Limma/edgeR/co
6.5 years ago Aaron Lun ★ 29k
3
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2
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4.5k
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Answer: A: Gene expression associated with continuous (quantitative) traits (Limma/edgeR/co
6.5 years ago Aaron Lun ★ 29k
0
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0
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3.1k
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Comment: C: Correct use of tximport in combination with edgeR cpm()
6.5 years ago Aaron Lun ★ 29k
3
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1
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3.1k
views
Answer: C: Correct use of tximport in combination with edgeR cpm()
6.5 years ago Aaron Lun ★ 29k
0
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0
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1.2k
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Answer: A: scATAC-seq analysis, data preprocessing
6.5 years ago Aaron Lun ★ 29k
1
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0
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1.4k
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Answer: A: design matrix and correlate variable
6.5 years ago Aaron Lun ★ 29k
1
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0
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5.0k
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Comment: C: How to get t-statistic values using edgeR?
6.5 years ago Aaron Lun ★ 29k
0
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0
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1.8k
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Comment: C: Complex Design matrix for DE analysis
6.5 years ago Aaron Lun ★ 29k
0
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1
reply
1.8k
views
Comment: C: Recommendations for running DropletUtils::swappedDrops() on multiplexed samples
6.5 years ago Aaron Lun ★ 29k
0
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0
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1.2k
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Comment: C: edgeR for looking at differences in coverage?
6.5 years ago Aaron Lun ★ 29k
0
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0
replies
1.8k
views
Comment: C: EdgeR between/within comparisons (3.5) with nested non-balanced data set
6.5 years ago Aaron Lun ★ 29k
0
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1
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3.0k
views
Comment: C: design and contrast matrix for limma (time course with 2 different genotypes)
6.5 years ago Aaron Lun ★ 29k
0
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1
reply
1.8k
views
Comment: C: EdgeR between/within comparisons (3.5) with nested non-balanced data set
6.5 years ago Aaron Lun ★ 29k
0
votes
1
reply
3.0k
views
Comment: C: design and contrast matrix for limma (time course with 2 different genotypes)
6.5 years ago Aaron Lun ★ 29k
0
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0
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1.5k
views
Comment: C: Is there a limitation to the number of cells swappedDrops can handle?
6.5 years ago Aaron Lun ★ 29k
2
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1
reply
3.0k
views
Answer: A: design and contrast matrix for limma (time course with 2 different genotypes)
6.5 years ago Aaron Lun ★ 29k
0
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0
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1.3k
views
Answer: A: How to create design matrix for differential analysis within the same cell-line
6.5 years ago Aaron Lun ★ 29k
1
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1
reply
1.2k
views
Answer: A: edgeR for looking at differences in coverage?
6.5 years ago Aaron Lun ★ 29k
1
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0
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2.9k
views
Answer: A: edgeR: Strange volcano plot
6.5 years ago Aaron Lun ★ 29k
2
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2
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1.8k
views
Answer: A: Recommendations for running DropletUtils::swappedDrops() on multiplexed samples
6.5 years ago Aaron Lun ★ 29k
0
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0
replies
1.5k
views
Answer: A: Is there a limitation to the number of cells swappedDrops can handle?
6.6 years ago Aaron Lun ★ 29k
2
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1
reply
3.8k
views
Answer: A: When to combine samples in the pre-processing of 10x scRNA-seq data?
6.6 years ago Aaron Lun ★ 29k
0
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1
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2.8k
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Comment: C: Some questions for remove batch effect by using mnnCorrect
6.6 years ago Aaron Lun ★ 29k
2
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2
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3.3k
views
Comment: C: limma - blocking or regressing out nuisance variable
6.6 years ago Aaron Lun ★ 29k
5
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1
reply
2.8k
views
Answer: A: Some questions for remove batch effect by using mnnCorrect
6.6 years ago Aaron Lun ★ 29k
1
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1
reply
3.3k
views
Comment: C: limma - blocking or regressing out nuisance variable
6.6 years ago Aaron Lun ★ 29k
0
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0
replies
4.3k
views
Comment: C: LIMMA time series spline model.matrix design setup
6.6 years ago Aaron Lun ★ 29k
2,880 results • Page 7 of 58
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