Showing : fgsea • reset
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fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
17 days ago GT • 0
2
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2
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888
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fgsea stuck in an infinite loop in the middle of the run
GSEABase fgsea msigdb GeneSetEnrichment
7 months ago • updated 6 months ago Assa Yeroslaviz ★ 1.5k
4
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4
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1.3k
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NAs in fgseaMultilevel
fgsea
updated 7 months ago by ▴ 280 • written 8 months ago by • 0
1
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13
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1.6k
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Ranking the GSEA Results
fgsea log2FC
9 months ago • updated 8 months ago V_Vibes • 0
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0
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409
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Filtering the genesets for fgseaMultiLevel
msigdb fgsea msig
9 months ago Tanvi • 0
4
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5
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1.5k
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Method to find pathways different between 2 groups
fgsea GSVA CAMERA
11 months ago • updated 10 months ago Chris ▴ 20
2
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2
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1.3k
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fgsea significant result
fgsea
11 months ago Chris ▴ 20
4
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2
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1.4k
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Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea edgeR
11 months ago gene_bioconductor ▴ 10
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380
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Empty table plot using plotGseaTable()
fgsea
11 months ago Chris ▴ 20
2
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4
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1.5k
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Perform gene set enrichment analysis using fgsea on two conditions that don't have differential express genes
fgsea
written 11 months ago by ▴ 20
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8
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1.9k
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FGSEA pre-ranked input in increasing order or decreasing
fgsea
updated 9 months ago by ▴ 280 • written 11 months ago by • 0
1
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5
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954
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fgsea fork
fgsea
updated 12 months ago by 68k • written 12 months ago by • 0
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2
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1.4k
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The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea gsea
12 months ago Gordon • 0
0
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5
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1.4k
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Help with DESeq results to pathways with the fgsea package
fgsea rna
updated 13 months ago by 68k • written 14 months ago by • 0
3
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2
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680
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cant' download fgsea_1.20.0.tar.gz
download fgsea
19 months ago luca.s ▴ 50
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0
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1.0k
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using fgsea to compare two datasets
GSEA fgsea
20 months ago Cen • 0
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0
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1.7k
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fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff clusterProfiler fgsea
22 months ago pg45863 ▴ 10
7
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6
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4.0k
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Implementation of the "original" GSEA algorithm in R
clusterProfiler GSEA fgsea
updated 2.3 years ago by 52k • written 2.3 years ago by ▴ 70
0
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0
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604
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is it possible to limit fgsea to particular tissue type?
fgsea
2.4 years ago kavator ▴ 30
0
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4
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1.5k
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GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
2.5 years ago dario.beraldi • 0
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8
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3.2k
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Problem with fgsea
fgsea
updated 9 months ago by 68k • written 3.0 years ago by • 0
2
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3
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5.0k
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fgsea not downloading due to new r version. Is there a way around this?
r fgsea
3.2 years ago amir.khan • 0
0
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1
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3.4k
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Tied Ranks in fgsea
fgsea
updated 3.9 years ago by ★ 4.1k • written 3.9 years ago by • 0
2
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3
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2.4k
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Compute fgsea with my own database with R version 4.0.2
R fgsea
updated 3.9 years ago by ▴ 280 • written 3.9 years ago by • 0
3
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3
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5.8k
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Warning with the example of GSEA
fgsea fgse
4.0 years ago • updated 3.9 years ago julie.hardy • 0
2
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2
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3.3k
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fgsea usage question - what gene set to use?
fgsea
4.1 years ago alexandr.gopanenko ▴ 50
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2
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2.1k
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Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
fgsea
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by ▴ 20
0
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3
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2.9k
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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 4.1 years ago by ★ 4.8k • written 4.1 years ago by ▴ 30
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1
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1.4k
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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 4.8 years ago by ▴ 280 • written 4.8 years ago by ▴ 30
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2
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2.1k
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what does gseaparam argument in fgsea() means?
fgsea
updated 4.8 years ago by ▴ 280 • written 4.8 years ago by ▴ 30
3
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2
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1.9k
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Calculate S/N ratios from apeglm for GSEA
apeglm fgsea Signal-To-Noise Ratio
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 20
8
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5
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4.6k
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How to get t-statistic values using edgeR?
r edger t-statistic fgsea gsea
updated 5.9 years ago by 52k • written 5.9 years ago by ▴ 120
0
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3
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3.9k
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fgsea p-values are mostly the same upon analysis
fgsea gsea sc-rnaseq
6.7 years ago atakanekiz ▴ 30
1
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2
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2.1k
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ReactomePA / Reactome: GSEA error message
reactomepa reactome gsea fgsea
6.8 years ago martin.busch • 0
1
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5
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2.6k
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FGSEA only runs with <1000 permutations
fgsea gsea
updated 7.7 years ago by ▴ 280 • written 7.7 years ago by • 0
0
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8
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3.4k
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Does fgsea order the stats argument?
fgsea
7.8 years ago rubi ▴ 110
6
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15
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3.8k
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Change in pathway IDs scheme in reactome.db
reactome.db fgsea
updated 8.0 years ago by ▴ 150 • written 8.0 years ago by ▴ 280
2
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1
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2.0k
views
Direction aware fgsea test
fgsea gsea
updated 8.2 years ago by ▴ 280 • written 8.2 years ago by ▴ 110
38 results • Page 1 of 1
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Comment: Co-occurrence Network Analysis between Algae and Bacteria by solarsunyy • 0
Deploy powerful missiles that generate large-scale explosions, resulting in the [solar smash online][1] formation of substantial craters on…
Comment: Phyloseq: How to add sample table to phyloseq object by chillykean • 0
@[Chill Guy Clicker][1]: You can add sample_table by creating a data frame containing sample information and using sample_data(myobject) <-…
Comment: Issue with Soft-Thresholding in WGCNA by dirty.cougar.risi • 0
Interesting data! Looking at these genes, it's like navigating a complex maze. The fluctuating values remind me of chasing high scores in […
Answer: compute_fasta_digest does not match Salmon index hash by Michael Love 43k
Can you provide more details on when this is happening? The salmon index is the definitive hash associated with the quant files, so I'm con…
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species by James W. MacDonald 68k
Oh wait. You want to map from Ensembl to NCBI? That's hard to do with model organisms, let alone non-model. This `OrgDb` doesn't have Ensem…
Votes
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
what the test method for enrichGO in clusterProfiler?
A: single-cells RNA-seq analysis by MAST with unbalanced group size
Comment: plyranges: find exact GRanges match keeping metadata columns
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