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fgsea
•
reset
3
votes
3
replies
3.9k
views
Warning with the example of GSEA
fgsea
fgse
3.0 years ago • updated 2.9 years ago
julie.hardy
• 0
8
votes
5
replies
3.3k
views
How to get t-statistic values using edgeR?
r
edger
t-statistic
fgsea
gsea
updated 4.9 years ago by
Gordon Smyth
50k • written 4.9 years ago by
Biologist
▴ 110
2
votes
3
replies
2.8k
views
fgsea not downloading due to new r version. Is there a way around this?
r
fgsea
2.2 years ago
amir.khan
• 0
6
votes
15
replies
2.8k
views
Change in pathway IDs scheme in reactome.db
reactome.db
fgsea
updated 6.9 years ago by
willem.ligtenberg
▴ 150 • written 6.9 years ago by
alserg
▴ 240
0
votes
3
replies
2.7k
views
fgsea p-values are mostly the same upon analysis
fgsea
gsea
sc-rnaseq
5.7 years ago
atakanekiz
▴ 30
0
votes
8
replies
2.7k
views
Does fgsea order the stats argument?
fgsea
6.8 years ago
rubi
▴ 110
0
votes
1
reply
2.2k
views
Tied Ranks in fgsea
fgsea
updated 2.9 years ago by
Guido Hooiveld
★ 3.9k • written 2.9 years ago by
zli1
• 0
2
votes
2
replies
2.1k
views
fgsea usage question - what gene set to use?
fgsea
3.1 years ago
alexandr.gopanenko
▴ 50
0
votes
3
replies
2.1k
views
why does stat column disappears after lfcshrink on deseq 2 and why does fgsea uses stat column (not affected by shrinking) for fgsea?
fgsea
DESeq2
updated 3.1 years ago by
ATpoint
★ 4.0k • written 3.1 years ago by
kavator
▴ 30
1
vote
5
replies
2.0k
views
FGSEA only runs with <1000 permutations
fgsea
gsea
updated 6.7 years ago by
alserg
▴ 240 • written 6.7 years ago by
shawn.w.foley
• 0
7
votes
6
replies
2.0k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler
GSEA
fgsea
updated 15 months ago by
Gordon Smyth
50k • written 15 months ago by
nhaus
▴ 10
1
vote
2
replies
1.7k
views
ReactomePA / Reactome: GSEA error message
reactomepa
reactome
gsea
fgsea
5.8 years ago
martin.busch
• 0
0
votes
7
replies
1.7k
views
Problem with fgsea
fgsea
updated 24 months ago by
alserg
▴ 240 • written 2.0 years ago by
Barista
• 0
2
votes
3
replies
1.7k
views
Compute fgsea with my own database with R version 4.0.2
R
fgsea
updated 2.9 years ago by
alserg
▴ 240 • written 2.9 years ago by
julie.hardy
• 0
0
votes
2
replies
1.6k
views
Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
fgsea
updated 3.1 years ago by
Kevin Blighe
★ 3.9k • written 3.1 years ago by
yueli7
▴ 20
2
votes
1
reply
1.5k
views
Direction aware fgsea test
fgsea
gsea
updated 7.2 years ago by
alserg
▴ 240 • written 7.2 years ago by
rubi
▴ 110
1
vote
2
replies
1.4k
views
what does gseaparam argument in fgsea() means?
fgsea
updated 3.8 years ago by
alserg
▴ 240 • written 3.8 years ago by
kavator
▴ 30
3
votes
2
replies
1.3k
views
Calculate S/N ratios from apeglm for GSEA
apeglm
fgsea
Signal-To-Noise Ratio
updated 4.9 years ago by
Michael Love
41k • written 4.9 years ago by
coulsonr
▴ 20
0
votes
4
replies
1.0k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt
GO
ensembldb
fgsea
18 months ago
dario.beraldi
• 0
0
votes
1
reply
988
views
do expression of leading edges within a negative NES term reflect the same direction as it's enrichment score? aka downregulation of leading edges
fgsea
updated 3.7 years ago by
alserg
▴ 240 • written 3.7 years ago by
kavator
▴ 30
0
votes
0
replies
738
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff
clusterProfiler
fgsea
10 months ago
pg45863
▴ 10
0
votes
0
replies
555
views
using fgsea to compare two datasets
GSEA
fgsea
8 months ago
Cen
• 0
3
votes
2
replies
354
views
cant' download fgsea_1.20.0.tar.gz
download
fgsea
7 months ago
luca.s
▴ 50
0
votes
5
replies
346
views
Help with DESeq results to pathways with the fgsea package
fgsea
rna
updated 6 weeks ago by
James W. MacDonald
65k • written 7 weeks ago by
Gordon
• 0
0
votes
0
replies
342
views
is it possible to limit fgsea to particular tissue type?
fgsea
16 months ago
kavator
▴ 30
0
votes
1
reply
198
views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea
gsea
updated 3 days ago by
Guido Hooiveld
★ 3.9k • written 5 days ago by
Gordon
• 0
26 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
Answer: Microarray Limma Model fitting and DEG
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