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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 7.0 years ago by
willem.ligtenberg
▴ 150 • written 7.0 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 2.0 years 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
991
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 3.8 years ago by
alserg
▴ 240 • written 3.8 years ago by
kavator
▴ 30
0
votes
0
replies
747
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff
clusterProfiler
fgsea
10 months ago
pg45863
▴ 10
0
votes
0
replies
558
views
using fgsea to compare two datasets
GSEA
fgsea
8 months ago
Cen
• 0
3
votes
2
replies
357
views
cant' download fgsea_1.20.0.tar.gz
download
fgsea
7 months ago
luca.s
▴ 50
0
votes
5
replies
349
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
345
views
is it possible to limit fgsea to particular tissue type?
fgsea
16 months ago
kavator
▴ 30
0
votes
1
reply
204
views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea
gsea
updated 4 days ago by
Guido Hooiveld
★ 3.9k • written 6 days ago by
Gordon
• 0
0
votes
0
replies
16
views
fgsea fork
fgsea
6 hours ago
yimjohns
• 0
27 results • Page
1 of 1
Recent ...
Replies
Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
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…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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James W. MacDonald
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