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EGSEA
•
reset
9
votes
7
replies
19k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 3 months ago by
amin8w
▴ 10 • written 6.7 years ago by
sina.nassiri
▴ 130
6
votes
6
replies
2.7k
views
EGSEA error during report generation: "only 0's may be mixed with negative subscripts"
EGSEA
updated 3.4 years ago by
Martin
• 0 • written 4.8 years ago by
pgugger
▴ 70
2
votes
7
replies
1.7k
views
EGSEA - failing to write report
EGSEA
write
updated 7.1 years ago by
Monther Alhamdoosh
▴ 40 • written 7.1 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
7.2 years ago
Pekka Kohonen
▴ 190
1
vote
1
reply
1.1k
views
EGSEA : unable to plot heatmaps.
EGSEA
R bioconductor
6.6 years ago
RV
• 0
1
vote
0
replies
967
views
EGSEA install licensed KEGG data
EGSEA
KEGG
EGSEAdata
6.1 years ago
john.thompson
▴ 10
1
vote
0
replies
691
views
EGSEA - clarification of values in the Stats Table
egsea
limma
4.6 years ago
rocanja
▴ 60
0
votes
1
reply
248
views
EGSEA with Affymetrix data
EGSEA
updated 4 months ago by
James W. MacDonald
65k • written 4 months ago by
cverschoor
• 0
0
votes
3
replies
1.8k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma
KEGGREST
EGSEA
updated 21 months ago by
shepherl
3.8k • written 21 months ago by
Jenny Drnevich
★ 2.0k
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 7.5 years ago by
Monther Alhamdoosh
▴ 40 • written 7.5 years ago by
yingchen
• 0
0
votes
1
reply
698
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
11 months ago
neilzhao
▴ 30
0
votes
2
replies
1.5k
views
Ensemble EGSEA (EGSEA): base GSA method failures
egsea
7.0 years ago
irizarnaunk
• 0
0
votes
5
replies
2.6k
views
EGSEA generateReport() error "no adj nodes"
EGSEA
EGSEA123
updated 6.3 years ago by
Monther Alhamdoosh
▴ 40 • written 6.3 years ago by
Jenny Drnevich
★ 2.0k
0
votes
0
replies
827
views
Contrast matrix for a continuous covariate - for EGSEA algorithm
design and contrast matrix
egsea
6.2 years ago
Stefano Mangiola
▴ 10
0
votes
1
reply
2.1k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 6.1 years ago by
Gordon Smyth
50k • written 6.1 years ago by
belmore
• 0
0
votes
2
replies
1.2k
views
How an index is built for each gene set collections using buildCustomIdx() indexing function of EGSEA package?
EGSEA
edgeR
biomaRt
limma
RNA-seq
4.6 years ago
fgol
▴ 10
0
votes
1
reply
340
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
17 results • Page
1 of 1
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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