Showing : fgsea • reset
8
votes
5
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3.4k
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
7
votes
6
replies
2.1k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler GSEA fgsea
updated 16 months ago by 50k • written 16 months ago by ▴ 30
6
votes
15
replies
2.9k
views
Change in pathway IDs scheme in reactome.db
reactome.db fgsea
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 240
3
votes
2
replies
379
views
cant' download fgsea_1.20.0.tar.gz
download fgsea
8 months ago luca.s ▴ 50
3
votes
3
replies
4.1k
views
Warning with the example of GSEA
fgsea fgse
3.0 years ago julie.hardy • 0
3
votes
2
replies
1.4k
views
Calculate S/N ratios from apeglm for GSEA
apeglm fgsea Signal-To-Noise Ratio
updated 5.0 years ago by 41k • written 5.0 years ago by ▴ 20
2
votes
1
reply
1.5k
views
Direction aware fgsea test
fgsea gsea
updated 7.3 years ago by ▴ 240 • written 7.3 years ago by ▴ 110
2
votes
2
replies
2.3k
views
fgsea usage question - what gene set to use?
fgsea
3.1 years ago alexandr.gopanenko ▴ 50
2
votes
3
replies
3.0k
views
fgsea not downloading due to new r version. Is there a way around this?
r fgsea
2.2 years ago amir.khan • 0
2
votes
3
replies
1.7k
views
Compute fgsea with my own database with R version 4.0.2
R fgsea
updated 3.0 years ago by ▴ 240 • written 3.0 years ago by • 0
1
vote
2
replies
1.8k
views
ReactomePA / Reactome: GSEA error message
reactomepa reactome gsea fgsea
5.9 years ago martin.busch • 0
1
vote
5
replies
2.0k
views
FGSEA only runs with <1000 permutations
fgsea gsea
updated 6.8 years ago by ▴ 240 • written 6.8 years ago by • 0
1
vote
2
replies
1.5k
views
what does gseaparam argument in fgsea() means?
fgsea
updated 3.9 years ago by ▴ 240 • written 3.9 years ago by ▴ 30
1
vote
5
replies
302
views
fgsea fork
fgsea
updated 28 days ago by 65k • written 28 days ago by • 0
0
votes
1
reply
2.4k
views
Tied Ranks in fgsea
fgsea
updated 3.0 years ago by ★ 3.9k • written 3.0 years ago by • 0
0
votes
0
replies
599
views
using fgsea to compare two datasets
GSEA fgsea
9 months ago Cen • 0
0
votes
4
replies
1.1k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
19 months ago dario.beraldi • 0
0
votes
2
replies
331
views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea gsea
5 weeks ago • updated 24 days ago Gordon • 0
0
votes
4
replies
139
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
8 days ago sropri • 0
0
votes
0
replies
366
views
is it possible to limit fgsea to particular tissue type?
fgsea
17 months ago kavator ▴ 30
0
votes
8
replies
2.7k
views
Does fgsea order the stats argument?
fgsea
6.8 years ago rubi ▴ 110
0
votes
0
replies
819
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff clusterProfiler fgsea
11 months ago pg45863 ▴ 10
0
votes
3
replies
2.8k
views
fgsea p-values are mostly the same upon analysis
fgsea gsea sc-rnaseq
5.8 years ago atakanekiz ▴ 30
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 3.2 years ago by ★ 4.0k • written 3.2 years ago by ▴ 30
0
votes
1
reply
1.0k
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 ▴ 240 • written 3.8 years ago by ▴ 30
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 3.2 years ago by ★ 3.9k • written 3.2 years ago by ▴ 20
0
votes
5
replies
458
views
Help with DESeq results to pathways with the fgsea package
fgsea rna
updated 10 weeks ago by 65k • written 11 weeks ago by • 0
0
votes
7
replies
1.8k
views
Problem with fgsea
fgsea
updated 2.1 years ago by ▴ 240 • written 2.1 years ago by • 0
28 results • Page 1 of 1
Recent ...
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 30
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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