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how to do Differential splicing from SGSeq analysis
DEXSeq
SGSeq
11 days ago • updated 6 days ago
Sara
• 0
0
votes
0
replies
69
views
Could we detect difference at pathway level but not significant different at gene level?
GSVA
6 days ago • updated 5 days ago
Chris
• 0
0
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3
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123
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Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
updated 3 days ago by
ATpoint
★ 4.1k • written 3 days ago by
james.zhang20
• 0
0
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0
replies
37
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How to create consensus peak sets for each group to use in DiffBind?
DiffBind
3 days ago
Ian D.
▴ 70
0
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0
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41
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DiffBind: no peaks in DBA object
DiffBind
macs2
chipseq
3 days ago
yvonneh
• 0
0
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0
replies
37
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flowStats for CyTOF
flowStats
2 days ago
tholmes
• 0
0
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0
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118
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One error problem occurred caused by data type during using GDCprepare function of TCGAbiolinks to handle TCGAbiolinks BRCA data
GDCRNATools
TCGA
10 days ago • updated 2 days ago
glaciya2018
• 0
0
votes
0
replies
44
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dba.plotProfile() plotting and interpretation
DiffBind
1 day ago
Henry
▴ 10
0
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0
replies
80
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Empty table plot using plotGseaTable()
fgsea
3 days ago • updated 1 day ago
Chris
• 0
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Comment: SGSeq: moving toward diffex from SGSeq analysis
by
Sara
• 0
Thank you for your response. I have another question about saving the sgvc result as a CSV file. I would appreciate your help, please. ``` …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I tried different block lengths first and considered 100000 to be ideal because of the almost similar inter-range distance. S1= bootRange…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
The segmentation and block length are key parameters. We recommend for example blocks of length ~500kb. It would help if you would post yo…
Answer: Handling multiple differential expression comparisons
by
Michael Love
41k
It's typical that results are presented with each group having its own FDR control. So presenting each comparison with the adjusted p-va…
Comment: Too many significant genes when integrating gtex and tcga
by
ATpoint
★ 4.1k
These two datasets are from completely different experiments / batches. It is utterly meaningless to compare them. I would suggest comparat…
Votes
Print Differentially Expressed Exons From Dexseq Results
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
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