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Answer: Answer: Opposite sign of LFC in count plots of DEGs (DESeq2)
2 days ago swbarnes2 ★ 1.3k
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176
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Answer: Answer: Interaction Terms in DESeq2 - Shrinkage
11 days ago swbarnes2 ★ 1.3k
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173
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Answer: Answer: Design Matrix within group comparison more than two groups
14 days ago swbarnes2 ★ 1.3k
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345
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Answer: Answer: DESEQ2 Batch Effect
7 weeks ago swbarnes2 ★ 1.3k
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351
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Answer: Answer: Is DESeq2 normalisation appropriate when counts were obtained for a small number
8 weeks ago swbarnes2 ★ 1.3k
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356
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Answer: Answer: LOG2FC DESEQ2
12 weeks ago swbarnes2 ★ 1.3k
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243
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Answer: Answer: Comparing one group against multiple groups in DESeq2
3 months ago swbarnes2 ★ 1.3k
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1.1k
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Answer: Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE
4 months ago swbarnes2 ★ 1.3k
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541
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Answer: Answer: Deseq2 Coefficients from resultsNames() not reflecting all coefficient possibili
4 months ago swbarnes2 ★ 1.3k
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442
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Answer: Answer: 'Subtracting' counts on basis of Negative control media and water samples
5 months ago swbarnes2 ★ 1.3k
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771
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Answer: Answer: Two factor design including interaction effect with DESeq2 in R
6 months ago swbarnes2 ★ 1.3k
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410
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Answer: Answer: DeSeq2 data comparison and extracting outputs
6 months ago swbarnes2 ★ 1.3k
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481
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Answer: Answer: Deseq2, how to model design for comparing Mutant mouse at age 14 days versus Mu
7 months ago swbarnes2 ★ 1.3k
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570
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Answer: Answer: How to properly compare the group-specific samples using DEseq2
8 months ago swbarnes2 ★ 1.3k
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682
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Answer: Answer: DESeq2 batch design
8 months ago swbarnes2 ★ 1.3k
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860
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Answer: Answer: Handle zero effective gene length when tximport RSEM results
8 months ago swbarnes2 ★ 1.3k
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1.3k
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Answer: Answer: Question about RNAseq analysis in EdgeR to identify common and donor specific di
9 months ago swbarnes2 ★ 1.3k
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578
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Answer: Answer: DESeq2 about comparasion of gene expression change on two-time points between t
11 months ago swbarnes2 ★ 1.3k
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541
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Answer: Answer: Accounting for technical replicates in DESeq2
11 months ago swbarnes2 ★ 1.3k
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486
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Answer: Answer: DESeq2 design formula
12 months ago swbarnes2 ★ 1.3k
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886
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Answer: Answer: Combine RNA-seq
12 months ago swbarnes2 ★ 1.3k
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670
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Answer: Answer: How to import dataset from other software into DESeq2?
12 months ago swbarnes2 ★ 1.3k
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446
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Answer: Answer: DESeq2 statistical model construction
12 months ago swbarnes2 ★ 1.3k
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620
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Answer: Answer: Compare and filter three BAM files
13 months ago swbarnes2 ★ 1.3k
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750
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Answer: Answer: How do I design my DESEQ experiment?
14 months ago swbarnes2 ★ 1.3k
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838
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Answer: Answer: DESeq2 analysis on Galaxy. PCA plot shows my replicates do not cluster and large
14 months ago swbarnes2 ★ 1.3k
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658
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Answer: Answer: RNAseq high padj value from validated samples?
14 months ago swbarnes2 ★ 1.3k
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0
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1.5k
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Answer: Answer: 10x BAM to count matrix in Rsubread and Rsamtools- cellCounts vs. featureCounts
14 months ago swbarnes2 ★ 1.3k
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2.1k
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Answer: Answer: DESeq2 and heatmap for multiple comparisons
14 months ago swbarnes2 ★ 1.3k
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551
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Answer: Answer: DEG analysis with Paired-end RNA-seq data using DESeq2, do I need to contain the
15 months ago swbarnes2 ★ 1.3k
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908
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Answer: Answer: Error running DESeq2 on longitudinal data: Error in checkFullRank(modelMatrix)
15 months ago swbarnes2 ★ 1.3k
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903
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Answer: Answer: DESeq2: overlap differentially expressed genes with and without interaction term
16 months ago swbarnes2 ★ 1.3k
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1.1k
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Answer: Answer: running DESeq2 from nanopore wf-alignment workflow
16 months ago swbarnes2 ★ 1.3k
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687
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Answer: Answer: Results analysis of differential gene expression using DESeq2 package
16 months ago swbarnes2 ★ 1.3k
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724
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Answer: Answer: How to filter for counts in different columns
16 months ago swbarnes2 ★ 1.3k
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544
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Answer: Answer: DESeq2 on multiple sample groups
17 months ago swbarnes2 ★ 1.3k
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1.9k
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Answer: Answer: Is it possible to convert "DESeq2's normalized counts" to "DEGs"?
17 months ago swbarnes2 ★ 1.3k
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1.9k
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Answer: Answer: countToFPKM and featureLength
17 months ago swbarnes2 ★ 1.3k
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1.6k
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Answer: Answer: DESeq2 false positive result?
17 months ago swbarnes2 ★ 1.3k
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309
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Answer: Answer: DESeq2 effect of interaction when using a grouping variable
17 months ago swbarnes2 ★ 1.3k
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697
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Answer: Answer: DESeq2 says my sampleinfo has linear combination error but I don't see it...
17 months ago swbarnes2 ★ 1.3k
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699
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Answer: Answer: Error in DESeqDataSetFromHTSeqCount
17 months ago swbarnes2 ★ 1.3k
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0
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557
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Answer: Answer: Analysing only significant genes from differential expression analysis in a repl
17 months ago swbarnes2 ★ 1.3k
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692
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Answer: Answer: DESeq2 correction for biological replicate variance using design
17 months ago swbarnes2 ★ 1.3k
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1.6k
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Answer: Answer: plotCounts to visualize variations of a specific genes along conditions
updated 18 months ago by 41k • written 18 months ago by ★ 1.3k
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880
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Answer: Answer: Design formula with batch effects DESeq2 "Not full rank matrix" error.
18 months ago swbarnes2 ★ 1.3k
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1.6k
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Answer: Answer: Error in `.rowNamesDF<-`(x, value = value) : duplicate 'row.names' are not al
18 months ago swbarnes2 ★ 1.3k
0
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974
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Answer: Answer: disappearing of DEGs genes by adjusting P-value < 0.05
18 months ago swbarnes2 ★ 1.3k
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763
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Answer: Answer: Running DESeq2 on viral infection without control/host data
18 months ago swbarnes2 ★ 1.3k
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1
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582
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Answer: Answer: RNA-seq DESeq2 factor design
18 months ago swbarnes2 ★ 1.3k
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