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0
votes
1
answer
32
views
1
answer
Question: Deconvolution Method in Seurat and convert from SingleCellExperiment
rnaseq scater seurat singlecellexperiment written 1 day ago by hamza_karakurt • 0 • updated 1 day ago by Aaron Lun • 21k
1
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1
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42
views
1
answer
Help analyzing RNA-seq data from FPKM values with multiple time points
rnaseq limma written 1 day ago by rsrzkk • 0 • updated 1 day ago by Aaron Lun • 21k
2
votes
1
answer
38
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1
answer
Help with multi-factored RNA-seq edgeR model
rnaseq edger interaction model design model written 2 days ago by cody0071 • 0 • updated 2 days ago by James W. MacDonald ♦ 48k
0
votes
1
answer
109
views
1
answer
Issue with DESeqDataSetFromMatrix
rnaseq affy deseq2 deseqdatasetfrommatrix written 5 days ago by matthew.sinton • 0 • updated 5 days ago by Michael Love ♦ 20k
1
vote
0
answers
63
views
0
answers
Fisher test in Rna seq
rnaseq R rna-seq written 5 days ago by g.k • 0
0
votes
1
answer
39
views
1
answer
DGE Analysis between 3 conditions
rnaseq deseq2 written 8 days ago by evocanres • 0 • updated 8 days ago by Michael Love ♦ 20k
2
votes
1
answer
54
views
1
answer
DESeq2 count outlier replacement from Cook's threshold
rnaseq deseq deseq2 outliers count outliers written 10 days ago by lefeverde • 0 • updated 9 days ago by Michael Love ♦ 20k
0
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0
answers
43
views
0
answers
how to retrieve gene id from topGO results
rnaseq written 10 days ago by ycding • 10
0
votes
2
answers
68
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2
answers
Data normalization and transformation using DESeq2
rnaseq normalization deseq2 variancestabilizingtransformation rlog transformation written 11 days ago by chiara.facciotto • 0
0
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1
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100
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1
answer
Controlling numerical covariates: differential gene expression with limma voom
rnaseq limma R voom differential gene expression written 11 days ago by Onyi Ukay • 0 • updated 11 days ago by mikhael.manurung • 10
7
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1
answer
2.4k
views
14 follow
1
answer
DESeq2 likelihood ratio test (LRT) design - 2 genotypes, 4 time points
rnaseq deseq2 design lrt reduced model written 19 months ago by I.Castanho • 50 • updated 12 days ago by evocanres • 0
0
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0
answers
51
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0
answers
RNA seq analysis
rnaseq machine learning written 12 days ago by marak • 0
2
votes
1
answer
107
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1
answer
Inconsistent result between limma/voom and DESeq2
rnaseq limma deseq2 voom limma-voom written 16 days ago by bharata1803 • 30 • updated 16 days ago by Gordon Smyth ♦ 35k
0
votes
1
answer
328
views
1
answer
feature reduction using machine learning
rnaseq feature selection machine learning written 22 days ago by marak • 0 • updated 16 days ago by chris86 • 380
2
votes
1
answer
73
views
1
answer
[MnnCorrect] Remove batch effects but keep condition effects
rnaseq scran single-cell mnncorrect written 17 days ago by John Reid • 10 • updated 17 days ago by Aaron Lun • 21k
0
votes
2
answers
101
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2
answers
RNA-seq analysis using R
rnaseq limma convert R written 17 days ago by justinkablan225 • 0 • updated 17 days ago by Gordon Smyth ♦ 35k
2
votes
1
answer
63
views
1
answer
topGO: GO terms in gene annotation do not match significant GO term output
rnaseq topgo go enrichment written 17 days ago by jgg • 0 • updated 17 days ago by James W. MacDonald ♦ 48k
6
votes
2
answers
119
views
2
answers
Normalization for small non-coding RNA
rnaseq smallrna deseq2 tmm written 19 days ago by yeles.konstantinos • 10 • updated 18 days ago by António Miguel de Jesus Domingues • 430
0
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0
answers
31
views
0
answers
ASpli Package: Problem with readCounts() function, no Junctions analysed.
rnaseq alternative splicing aspli written 19 days ago by nicolas.guyon2 • 0
3
votes
2
answers
75
views
2
answers
GZIP ERROR:-2 using featureCounts (Subread)
rnaseq software error written 23 days ago by gbreard • 10
0
votes
1
answer
63
views
1
answer
DESeq2 analysis design - different individuals for all samples
rnaseq deseq2 experimental design model.matrix written 24 days ago by Maithê Barros • 0
0
votes
1
answer
62
views
1
answer
Issue with normalization in DESeq2
rnaseq normalization deseq2 written 24 days ago by jmoehlin • 0 • updated 24 days ago by Michael Love ♦ 20k
1
vote
1
answer
109
views
1
answer
EdgeR RNAseq -- best way to deal with random effects
rnaseq edger written 25 days ago by emb13 • 0 • updated 25 days ago by Aaron Lun • 21k
0
votes
1
answer
43
views
1
answer
Pre-filtering results influence on downstream analysis
rnaseq deseq2 written 26 days ago by andrebolerbarros • 0 • updated 26 days ago by Michael Love ♦ 20k
2
votes
1
answer
92
views
1
answer
How to decide whether a variate should be in the model or not
rnaseq deseq2 written 4 weeks ago by Raymond • 0 • updated 29 days ago by Michael Love ♦ 20k
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