Showing : fgsea • reset
4
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5
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310
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Method to find pathways different between 2 groups
fgsea GSVA CAMERA
11 days ago • updated 1 day ago Chris ▴ 10
2
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2
replies
221
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fgsea significant result
fgsea
12 days ago • updated 11 days ago Chris ▴ 10
4
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2
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617
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Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea edgeR
14 days ago • updated 10 days ago gene_bioconductor ▴ 10
0
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0
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132
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Empty table plot using plotGseaTable()
fgsea
15 days ago • updated 13 days ago Chris ▴ 10
2
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2
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230
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Perform gene set enrichment analysis using fgsea on two conditions that don't have differential express genes
fgsea
17 days ago Chris ▴ 10
0
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4
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215
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FGSEA pre-ranked input in increasing order or decreasing
fgsea
28 days ago sropri • 0
1
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5
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363
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fgsea fork
fgsea
updated 6 weeks ago by 65k • written 7 weeks ago by • 0
0
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2
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367
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The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea gsea
7 weeks ago • updated 6 weeks ago Gordon • 0
0
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5
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522
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Help with DESeq results to pathways with the fgsea package
fgsea rna
updated 3 months ago by 65k • written 3 months ago by • 0
3
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2
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399
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cant' download fgsea_1.20.0.tar.gz
download fgsea
9 months ago luca.s ▴ 50
0
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0
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637
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using fgsea to compare two datasets
GSEA fgsea
10 months ago Cen • 0
0
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0
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863
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fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff clusterProfiler fgsea
11 months ago pg45863 ▴ 10
7
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6
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2.2k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler GSEA fgsea
updated 16 months ago by 50k • written 17 months ago by ▴ 30
0
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0
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378
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is it possible to limit fgsea to particular tissue type?
fgsea
18 months ago kavator ▴ 30
0
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4
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1.1k
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GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
19 months ago dario.beraldi • 0
0
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7
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1.9k
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Problem with fgsea
fgsea
updated 2.1 years ago by ▴ 260 • written 2.1 years ago by • 0
2
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3
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3.0k
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fgsea not downloading due to new r version. Is there a way around this?
r fgsea
2.3 years ago amir.khan • 0
0
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1
reply
2.4k
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Tied Ranks in fgsea
fgsea
updated 3.0 years ago by ★ 4.0k • written 3.0 years ago by • 0
2
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3
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1.8k
views
Compute fgsea with my own database with R version 4.0.2
R fgsea
updated 3.0 years ago by ▴ 260 • written 3.0 years ago by • 0
3
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3
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4.2k
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Warning with the example of GSEA
fgsea fgse
3.1 years ago • updated 3.0 years ago julie.hardy • 0
2
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2
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2.3k
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fgsea usage question - what gene set to use?
fgsea
3.2 years ago alexandr.gopanenko ▴ 50
0
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2
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1.7k
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Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
fgsea
updated 3.2 years ago by ★ 3.9k • written 3.2 years ago by ▴ 20
0
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3
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2.2k
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 3.2 years ago by ★ 4.1k • written 3.2 years ago by ▴ 30
0
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1
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1.1k
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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 3.9 years ago by ▴ 260 • written 3.9 years ago by ▴ 30
1
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2
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1.5k
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what does gseaparam argument in fgsea() means?
fgsea
updated 3.9 years ago by ▴ 260 • written 3.9 years ago by ▴ 30
3
votes
2
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1.4k
views
Calculate S/N ratios from apeglm for GSEA
apeglm fgsea Signal-To-Noise Ratio
updated 5.0 years ago by 42k • written 5.0 years ago by ▴ 20
8
votes
5
replies
3.5k
views
How to get t-statistic values using edgeR?
r edger t-statistic fgsea gsea
updated 5.0 years ago by 50k • written 5.0 years ago by ▴ 110
0
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3
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2.9k
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fgsea p-values are mostly the same upon analysis
fgsea gsea sc-rnaseq
5.8 years ago atakanekiz ▴ 30
1
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2
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1.8k
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ReactomePA / Reactome: GSEA error message
reactomepa reactome gsea fgsea
5.9 years ago martin.busch • 0
1
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5
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2.1k
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FGSEA only runs with <1000 permutations
fgsea gsea
updated 6.8 years ago by ▴ 260 • written 6.8 years ago by • 0
0
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8
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2.8k
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Does fgsea order the stats argument?
fgsea
6.9 years ago rubi ▴ 110
6
votes
15
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2.9k
views
Change in pathway IDs scheme in reactome.db
reactome.db fgsea
updated 7.1 years ago by ▴ 150 • written 7.1 years ago by ▴ 260
2
votes
1
reply
1.5k
views
Direction aware fgsea test
fgsea gsea
updated 7.3 years ago by ▴ 260 • written 7.3 years ago by ▴ 110
33 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
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Thanks a lot!
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Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
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So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
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Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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