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ctlab
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fgsea
Fast Gene Set Enrichment Analysis
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added more details about scoreType
#113
ShaiberAlon
closed
2 years ago
1
problem of fgseaMultilevel
#112
FionaMoon
closed
2 years ago
4
Problematic p-value histogram from fgsea (scoreType='pos')
#111
kvittingseerup
closed
2 years ago
3
Results are not reproducible
#110
korommatyi
closed
2 years ago
3
Info on running multi-condition geseca
#109
kvittingseerup
closed
2 years ago
5
enrichment score seems to have inverse sign
#108
EBosi
closed
3 years ago
2
fgsea gives many highly sign. gene sets for comparison where I expect a few
#107
ms-gx
closed
3 years ago
1
p values
#106
davidlyon3
closed
3 years ago
3
fgseaMultilevel Error in result[[njob]] <- value : attempt to select less than one element in OneIndex
#105
Brawni
closed
3 years ago
10
fgsea set.seed returns different results on bitbucket server than locally
#104
ldiao
closed
3 years ago
5
fgsea-simple vs fgsea-multilevel - when to use one or the other?
#103
mgrantpeters
closed
3 years ago
1
Code completes, but gives "Warning in serialize" warnings when running fgsea command
#102
RobertWhitener
closed
3 years ago
4
plotGseaTable not displaying the results
#101
RobertWhitener
closed
2 years ago
13
p values not reproducible when running fgsea function despite set.seed
#100
pforny
closed
3 years ago
4
Duplicated genes in $leadingEdge output from fgsea()
#99
mgrantpeters
closed
3 years ago
4
Error in pathway %fin% pathwaysToCheck : object 'pathway' not found
#98
mdanb
closed
3 years ago
2
NA in pval column
#97
pstew
closed
3 years ago
2
direction of pathway change in the results
#96
zhangguy
closed
1 year ago
2
Ranking genes from Sleuth with aggregated p-value
#95
StephenRicher
closed
3 years ago
2
multilevelImpl function fatal error
#94
mfrisoli126
closed
3 years ago
3
fgsea hangs with nperm=1001, but not 1000
#93
assaron
opened
3 years ago
6
the same results with descending and ascending order of gene list
#92
ncusk
closed
3 years ago
4
Update .travis.yml
#91
assaron
closed
3 years ago
0
Update appveyor.yml
#90
assaron
closed
3 years ago
0
Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
#89
yueli8
closed
3 years ago
1
fgsea vs liger: what is the difference in the results?
#88
pascaltimshel
closed
3 years ago
2
scoreType argument
#87
pascaltimshel
closed
3 years ago
2
is there any way to output all results of all inputted pathways
#86
helianthuszhu
closed
3 years ago
4
Which testing method is the best?
#85
xihuiyin
closed
3 years ago
3
Suggestion: multi-thread collapsePathways
#84
Horokhovskyi
opened
4 years ago
1
p-value calculation using fgsea fgseaSimple function
#83
mengyuankan
closed
4 years ago
10
Error in if (maxP > -minP) { : missing value where TRUE/FALSE needed
#82
nfancy
closed
4 years ago
6
fora call errors when no pathways overlap with universe
#81
p-smirnov
closed
4 years ago
2
Different results on Mac and Linux
#80
korommatyi
closed
3 years ago
5
scoreType question
#79
pstew
closed
4 years ago
2
fgsea never stops running
#78
johnse
closed
4 years ago
5
How to calcuclate the error estimations in returned p-values?
#77
guidohooiveld
closed
4 years ago
2
collapsePathways
#76
tallulandrews
closed
4 years ago
2
pathways for which P-values were not calculated properly due to unbalanced gene-level statistic values
#75
shangguandong1996
closed
4 years ago
6
`theme_bw()` is hard-coded in some plots
#74
mjsteinbaugh
closed
1 year ago
6
Change the estimate of the probability of the denominator
#73
vdsukhov
closed
4 years ago
0
struggling to understand fgsea output
#72
nfancy
closed
4 years ago
4
Fix a bug for the case when the signed ES = 0 and scoreType != std
#71
vdsukhov
closed
4 years ago
1
Identical padj among the top significant pathways
#70
trezende21
closed
4 years ago
1
BPPARAM error
#69
andrewbcaldwell
closed
4 years ago
2
Cumulative test
#68
ktroule
closed
4 years ago
1
fgsea NA values?
#67
ahdee
closed
4 years ago
3
Ranking the genes from Seurat DE output file
#66
aaqib-ux
closed
4 years ago
1
Depends: Rcpp
#65
pcarbo
closed
4 years ago
6
Fix bug in collapsePathways
#64
vdsukhov
closed
4 years ago
0
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