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Showing :
fgsea
•
reset
1
vote
13
replies
658
views
Ranking the GSEA Results
fgsea
log2FC
29 days ago • updated 11 days ago
V_Vibes
• 0
0
votes
0
replies
137
views
Filtering the genesets for fgseaMultiLevel
msigdb
fgsea
msig
5 weeks ago
Tanvi
• 0
4
votes
5
replies
534
views
Method to find pathways different between 2 groups
fgsea
GSVA
CAMERA
11 weeks ago • updated 10 weeks ago
Chris
▴ 20
2
votes
2
replies
414
views
fgsea significant result
fgsea
11 weeks ago
Chris
▴ 20
4
votes
2
replies
817
views
Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea
edgeR
12 weeks ago • updated 11 weeks ago
gene_bioconductor
▴ 10
0
votes
0
replies
188
views
Empty table plot using plotGseaTable()
fgsea
12 weeks ago
Chris
▴ 20
2
votes
2
replies
403
views
Perform gene set enrichment analysis using fgsea on two conditions that don't have differential express genes
fgsea
12 weeks ago
Chris
▴ 20
0
votes
8
replies
666
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
updated 6 weeks ago by
alserg
▴ 270 • written 3 months ago by
sropri
• 0
1
vote
5
replies
527
views
fgsea fork
fgsea
updated 3 months ago by
James W. MacDonald
66k • written 3 months ago by
yimjohns
• 0
0
votes
2
replies
539
views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea
gsea
4 months ago • updated 3 months ago
Gordon
• 0
0
votes
5
replies
725
views
Help with DESeq results to pathways with the fgsea package
fgsea
rna
updated 5 months ago by
James W. MacDonald
66k • written 5 months ago by
Gordon
• 0
3
votes
2
replies
474
views
cant' download fgsea_1.20.0.tar.gz
download
fgsea
11 months ago
luca.s
▴ 50
0
votes
0
replies
730
views
using fgsea to compare two datasets
GSEA
fgsea
12 months ago
Cen
• 0
0
votes
0
replies
1.1k
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff
clusterProfiler
fgsea
14 months ago
pg45863
▴ 10
7
votes
6
replies
2.5k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler
GSEA
fgsea
updated 19 months ago by
Gordon Smyth
51k • written 19 months ago by
nhaus
▴ 50
0
votes
0
replies
429
views
is it possible to limit fgsea to particular tissue type?
fgsea
20 months ago
kavator
▴ 30
0
votes
4
replies
1.2k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt
GO
ensembldb
fgsea
22 months ago
dario.beraldi
• 0
0
votes
8
replies
2.2k
views
Problem with fgsea
fgsea
updated 5 weeks ago by
James W. MacDonald
66k • written 2.3 years ago by
Barista
• 0
2
votes
3
replies
3.3k
views
fgsea not downloading due to new r version. Is there a way around this?
r
fgsea
2.5 years ago
amir.khan
• 0
0
votes
1
reply
2.6k
views
Tied Ranks in fgsea
fgsea
updated 3.2 years ago by
Guido Hooiveld
★ 4.0k • written 3.2 years ago by
zli1
• 0
2
votes
3
replies
1.9k
views
Compute fgsea with my own database with R version 4.0.2
R
fgsea
updated 3.2 years ago by
alserg
▴ 270 • written 3.2 years ago by
julie.hardy
• 0
3
votes
3
replies
4.6k
views
Warning with the example of GSEA
fgsea
fgse
3.3 years ago • updated 3.2 years ago
julie.hardy
• 0
2
votes
2
replies
2.5k
views
fgsea usage question - what gene set to use?
fgsea
3.4 years ago
alexandr.gopanenko
▴ 50
0
votes
2
replies
1.8k
views
Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
fgsea
updated 3.4 years ago by
Kevin Blighe
★ 4.0k • written 3.4 years ago by
yueli7
▴ 20
0
votes
3
replies
2.3k
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 3.4 years ago by
ATpoint
★ 4.2k • written 3.4 years ago by
kavator
▴ 30
0
votes
1
reply
1.2k
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 4.1 years ago by
alserg
▴ 270 • written 4.1 years ago by
kavator
▴ 30
1
vote
2
replies
1.6k
views
what does gseaparam argument in fgsea() means?
fgsea
updated 4.1 years ago by
alserg
▴ 270 • written 4.1 years ago by
kavator
▴ 30
3
votes
2
replies
1.5k
views
Calculate S/N ratios from apeglm for GSEA
apeglm
fgsea
Signal-To-Noise Ratio
updated 5.2 years ago by
Michael Love
42k • written 5.2 years ago by
coulsonr
▴ 20
8
votes
5
replies
3.8k
views
How to get t-statistic values using edgeR?
r
edger
t-statistic
fgsea
gsea
updated 5.2 years ago by
Gordon Smyth
51k • written 5.2 years ago by
Biologist
▴ 120
0
votes
3
replies
3.1k
views
fgsea p-values are mostly the same upon analysis
fgsea
gsea
sc-rnaseq
6.0 years ago
atakanekiz
▴ 30
1
vote
2
replies
1.9k
views
ReactomePA / Reactome: GSEA error message
reactomepa
reactome
gsea
fgsea
6.1 years ago
martin.busch
• 0
1
vote
5
replies
2.2k
views
FGSEA only runs with <1000 permutations
fgsea
gsea
updated 7.0 years ago by
alserg
▴ 270 • written 7.0 years ago by
shawn.w.foley
• 0
0
votes
8
replies
3.0k
views
Does fgsea order the stats argument?
fgsea
7.1 years ago
rubi
▴ 110
6
votes
15
replies
3.1k
views
Change in pathway IDs scheme in reactome.db
reactome.db
fgsea
updated 7.3 years ago by
willem.ligtenberg
▴ 150 • written 7.3 years ago by
alserg
▴ 270
2
votes
1
reply
1.6k
views
Direction aware fgsea test
fgsea
gsea
updated 7.5 years ago by
alserg
▴ 270 • written 7.5 years ago by
rubi
▴ 110
35 results • Page
1 of 1
Recent ...
Replies
Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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Lluís Revilla Sancho
▴ 730
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to
maltethodberg
▴ 180
Scholar
to
Michael Love
42k
Popular Question
to
Leonardo Collado Torres
★ 1.1k
Scholar
to
Gordon Smyth
51k
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