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50
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0
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RNA sequencing analysis for time point experiment using DeSeq2
rnaseq deseq2 rna written 13 hours ago by hrishi27n • 0
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1
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71
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1
answer
[MnnCorrect] In case of known subpopulations
rnaseq scran single-cell mnncorrect written 2 days ago by Jens Preussner • 10
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1
answer
69
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1
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confusion with tximport options and resulting matrix
rnaseq limma voom tximport rsem written 2 days ago by arubio • 0 • updated 2 days ago by Gordon Smyth ♦ 30k
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3
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74
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3
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Load saved RangedSummarizedExperiment as Deseq2 dataset
rnaseq deseq2 hdf5 rangedsummarizedexperiment written 3 days ago by Jakob Petereit • 0
3
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3
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86
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3
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DESeq function taking too long
rnaseq deseq deseq2 factor written 2 days ago by sup230 • 0 • updated 2 days ago by Peter Langfelder • 1.2k
3
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2
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136
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2
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deseq2 complex time course data with out replicates
rnaseq timecourse deseq2 written 3 days ago by novicebioinforesearcher • 0 • updated 3 days ago by Gavin Kelly • 230
1
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2
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64
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2
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[DESeq2] time-course Experimental design
rnaseq deseq2 time-course written 3 days ago by inzirio • 0 • updated 3 days ago by Gavin Kelly • 230
7
votes
1
answer
181
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1
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LogFC: how do you determine the cutoff for differentially expressed genes?
rnaseq limma R logfc differential gene expression written 6 days ago by cms72 • 0 • updated 6 days ago by Aaron Lun • 15k
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2
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64
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2
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DESeq2 using interaction terms or grouping variable
rnaseq deseq2 written 9 days ago by rrcutler • 10
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1
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71
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1
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How to adjust for different cell type mixtures in differential expression analysis?
rnaseq differential expression adjustment cell types mixtures written 14 days ago by aec • 30 • updated 14 days ago by Ryan C. Thompson ♦ 5.8k
3
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1
answer
75
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1
answer
Batch effect between paired and single ended reads
rnaseq written 15 days ago by chris86 • 290 • updated 15 days ago by Gordon Smyth ♦ 30k
2
votes
1
answer
88
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1
answer
DESeq2 time series tissue specific differences over time
rnaseq timecourse deseq2 multiple time points written 23 days ago by Nicholas Owen • 0
3
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1
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77
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1
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Cross-species RNA-seq with DESeq2
rnaseq deseq2 across species written 17 days ago by vtartaglio • 0 • updated 16 days ago by Michael Love ♦ 13k
1
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1
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623
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1
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Low number differentially expressed genes with DESeq2, want to estimate dispersion gene-wise
rnaseq deseq2 differential gene expression written 2.3 years ago by A • 0
2
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2
answers
82
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2
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Three way-interaction on voom (limma) data, including a factor with > 2 levels
rnaseq limma anova voom written 24 days ago by David Rengel • 60
8
votes
2
answers
780
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2
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What to use: PCA or tSNE dimension reduction in DESeq2 analysis?
rnaseq deseq2 pca tsne written 28 days ago by s.w.vanderlaan • 10 • updated 27 days ago by Kushal K Dey • 10
0
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1
answer
65
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1
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RNAseq Analysis using RUVs
rnaseq ruvseq R written 29 days ago by manish20072013 • 0 • updated 28 days ago by davide risso • 390
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1
answer
47
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1
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EdgeR dispersion and FDR
rnaseq edger fdr written 28 days ago by dsarbashis • 0 • updated 28 days ago by Aaron Lun • 15k
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1
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53
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1
answer
How to generate heatmap for three groups
rnaseq ruvseq heatmap written 29 days ago by manish20072013 • 0 • updated 29 days ago by James W. MacDonald ♦ 43k
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0
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52
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0
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Differential expressed genes between different samples in RUVseq
rnaseq R differential gene expression ruv written 4 weeks ago by manish20072013 • 0
2
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1
answer
99
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1
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Decide normalisation method in RUVseq for RNAseq data
rnaseq normalization edger ruvseq ruvnormalize written 4 weeks ago by manish20072013 • 0 • updated 4 weeks ago by davide risso • 390
4
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1
answer
135
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1
answer
RNAseq with technical replicates: Does it sound right?
rnaseq edger technical replicates written 4 weeks ago by alakatos • 70 • updated 4 weeks ago by Ryan C. Thompson ♦ 5.8k
0
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1
answer
88
views
1
answer
How to perform DESeq2 based on paired sample test?
rnaseq deseq2 written 5 weeks ago by zhxiaokang • 0 • updated 5 weeks ago by Michael Love ♦ 13k
0
votes
1
answer
94
views
1
answer
how to use q value to select differentially expressed genes
rnaseq written 5 weeks ago by ahmadvandra • 0 • updated 5 weeks ago by Lluís R • 270
0
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2
answers
104
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2
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Warning: missing reverse strand option in easyRNASeq.
rnaseq easyrnaseq strand written 6 weeks ago by Michael Dondrup • 10 • updated 6 weeks ago by Hervé Pagès ♦♦ 12k
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