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gsva
•
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9
votes
7
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20k
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Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 5 months ago by
amin8w
▴ 10 • written 6.8 years ago by
sina.nassiri
▴ 130
4
votes
2
replies
1.2k
views
Gene set analysis: GSVA, Z-Score, and fold-changes
GSVA
RNASeq
limma
updated 10 months ago by
Gordon Smyth
50k • written 10 months ago by
Jonathan
▴ 10
2
votes
7
replies
1.8k
views
Issue with GSVA using dgCMatrix
GSVA
updated 8 weeks ago by
Moritz
▴ 10 • written 2.9 years ago by
resa
• 0
2
votes
6
replies
1.6k
views
How can I avoid artifacts in gene set/pathway scoring by UCell and similar algorithms?
escape
UCell
GSVA
updated 5 months ago by
arina
• 0 • written 14 months ago by
Omer
• 0
1
vote
2
replies
518
views
GSVA error
GSVA
22 days ago • updated 20 days ago
Alex
• 0
1
vote
6
replies
494
views
GSVA on separate healthy and disease datasets
GSVA
updated 25 days ago by
James W. MacDonald
65k • written 26 days ago by
Lucy
▴ 60
1
vote
1
reply
627
views
How should I run ssGSEA Hallmark Enrichment Analysis?
ssgsea
GSVA
biotype
proteincoding
msigdb
updated 5 months ago by
Robert Castelo
★ 3.3k • written 5 months ago by
snijesh
▴ 20
0
votes
0
replies
72
views
Could we detect difference at pathway level but not significant different at gene level?
GSVA
6 days ago
Chris
• 0
0
votes
1
reply
408
views
GSVA exceeds 1
GSVA
updated 8 months ago by
Robert Castelo
★ 3.3k • written 8 months ago by
Heba
• 0
0
votes
1
reply
48
views
Method to find pathways different between 2 groups
fgsea
GSVA
CAMERA
updated 6 hours ago by
Gordon Smyth
50k • written 9 hours ago by
Chris
• 0
10 results • Page
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Replies
Comment: Couldn't connect to server while using "pathways"
by
ATpoint
★ 4.1k
Please understand that we neither can see your screen, nor read minds. You at least need to provide the line of code and the name of the pa…
Answer: Method to find pathways different between 2 groups
by
Gordon Smyth
50k
> When I search camera limma on pubmed, I found 2 papers I am unclear what point you are trying to make. limma's camera method has been fo…
Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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