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GSVA
•
reset
9
votes
7
replies
20k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 4 months ago by
amin8w
▴ 10 • written 6.7 years ago by
sina.nassiri
▴ 130
3
votes
2
replies
1.2k
views
Gene set analysis: GSVA, Z-Score, and fold-changes
GSVA
RNASeq
limma
updated 9 months ago by
Gordon Smyth
50k • written 9 months ago by
Jonathan
▴ 10
2
votes
7
replies
1.7k
views
Issue with GSVA using dgCMatrix
GSVA
updated 6 weeks ago by
Moritz
▴ 10 • written 2.8 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 4 months ago by
arina
• 0 • written 14 months ago by
Omer
• 0
1
vote
1
reply
565
views
How should I run ssGSEA Hallmark Enrichment Analysis?
ssgsea
GSVA
biotype
proteincoding
msigdb
updated 4 months ago by
Robert Castelo
★ 3.2k • written 4 months ago by
snijesh
▴ 20
1
vote
2
replies
235
views
GSVA error
GSVA
5 days ago • updated 4 days ago
Alex
• 0
1
vote
6
replies
432
views
GSVA on separate healthy and disease datasets
GSVA
updated 9 days ago by
James W. MacDonald
65k • written 10 days ago by
Lucy
▴ 60
0
votes
1
reply
383
views
GSVA exceeds 1
GSVA
updated 7 months ago by
Robert Castelo
★ 3.2k • written 7 months ago by
Heba
• 0
8 results • Page
1 of 1
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Replies
Comment: Bioinformatics Laboratory Head in AI or machine learning (WEHI, Australia)
by
christianhilton64
• 0
I'm less familiar with the specifics of GSVA, but I'm curious about the overall goal of this analysis. Could you provide a high-level summa…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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Robert Castelo
★ 3.2k
Popular Question
to
James W. MacDonald
65k
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shepherl
3.8k
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to
BioinfGuru
▴ 30
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to
Gordon Smyth
50k
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