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EGSEA
•
reset
9
votes
7
replies
20k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 4 months ago by
amin8w
▴ 10 • written 6.8 years ago by
sina.nassiri
▴ 130
0
votes
1
reply
265
views
EGSEA with Affymetrix data
EGSEA
updated 5 months ago by
James W. MacDonald
65k • written 5 months ago by
cverschoor
• 0
0
votes
1
reply
366
views
Is it possible to use pre-ranked list in EGSEA?
EGSEA
EGSEAdata
EGSEA123
DifferentialExpression
updated 7 months ago by
James W. MacDonald
65k • written 7 months ago by
Tiago
• 0
0
votes
1
reply
740
views
EGSEA::egsea - Parallelization issue and "Error in array(col.rgb[, i], dim(node.rgb)[3:1]) : negative length vectors are not allowed"
egsea
EGSEA123
12 months ago
neilzhao
▴ 30
0
votes
3
replies
1.9k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma
KEGGREST
EGSEA
updated 22 months ago by
shepherl
3.8k • written 22 months ago by
Jenny Drnevich
★ 2.0k
6
votes
6
replies
2.8k
views
EGSEA error during report generation: "only 0's may be mixed with negative subscripts"
EGSEA
updated 3.5 years ago by
Martin
• 0 • written 4.8 years ago by
pgugger
▴ 70
1
vote
0
replies
712
views
EGSEA - clarification of values in the Stats Table
egsea
limma
4.6 years ago
rocanja
▴ 60
0
votes
2
replies
1.3k
views
How an index is built for each gene set collections using buildCustomIdx() indexing function of EGSEA package?
EGSEA
edgeR
biomaRt
limma
RNA-seq
4.7 years ago
fgol
▴ 10
0
votes
1
reply
2.2k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 6.2 years ago by
Gordon Smyth
50k • written 6.2 years ago by
belmore
• 0
1
vote
0
replies
990
views
EGSEA install licensed KEGG data
EGSEA
KEGG
EGSEAdata
6.2 years ago
john.thompson
▴ 10
0
votes
0
replies
843
views
Contrast matrix for a continuous covariate - for EGSEA algorithm
design and contrast matrix
egsea
6.2 years ago
Stefano Mangiola
▴ 10
0
votes
5
replies
2.6k
views
EGSEA generateReport() error "no adj nodes"
EGSEA
EGSEA123
updated 6.4 years ago by
Monther Alhamdoosh
▴ 40 • written 6.4 years ago by
Jenny Drnevich
★ 2.0k
1
vote
1
reply
1.1k
views
EGSEA : unable to plot heatmaps.
EGSEA
R bioconductor
6.6 years ago
RV
• 0
0
votes
2
replies
1.5k
views
Ensemble EGSEA (EGSEA): base GSA method failures
egsea
7.0 years ago
irizarnaunk
• 0
2
votes
7
replies
1.8k
views
EGSEA - failing to write report
EGSEA
write
updated 7.2 years ago by
Monther Alhamdoosh
▴ 40 • written 7.2 years ago by
mforde84
▴ 20
2
votes
3
replies
1.6k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
7.3 years ago • updated 7.2 years ago
Pekka Kohonen
▴ 190
0
votes
4
replies
1.9k
views
EGSEA: how does the program generate the value for the up or down regulation of gene sets or pathways
pathways
gsea
egsea
gage
updated 7.6 years ago by
Monther Alhamdoosh
▴ 40 • written 7.6 years ago by
yingchen
• 0
17 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Michael Love
41k
I don't really have any additional suggestion here.
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Dear Michael, I tried all three ways (the orIginal, increasing the number of required samples,and subsetting (the countdata and metadata be…
Comment: DESeq2 - dispersion estimation when there is none
by
Michael Love
41k
The red line does assume that shape but the fact the black points show that pattern is discussed in the 2014 paper. > Some caution is warr…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function
by
James W. MacDonald
65k
I don't really follow what you are saying. All you have to do is delete the NCBI.sqlite db and *re-run the script exactly as you did above.…
Comment: Methylation Analysis experiment design using Limma
by
hortense96
• 0
Thank you very much for your reply and your suggestion, as I'm having a bit of trouble finding information on how to manage this part of th…
Votes
DESeq2: How to find out how well the model fits the data?
Comment: DESeq2 - dispersion estimation when there is none
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
Answer: OrgDb for maize
Answer: DESeq2 - dispersion estimation when there is none
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