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egsea
•
reset
3
votes
5
replies
674
views
Help with running egsea()
EGSEA
7 months ago
Chris
▴ 20
0
votes
1
reply
467
views
EGSEA with Affymetrix data
EGSEA
updated 13 months ago by
James W. MacDonald
67k • written 13 months ago by
cverschoor
• 0
0
votes
1
reply
605
views
Is it possible to use pre-ranked list in EGSEA?
EGSEA
EGSEAdata
EGSEA123
DifferentialExpression
updated 15 months ago by
James W. MacDonald
67k • written 15 months ago by
Tiago
• 0
0
votes
1
reply
991
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
20 months ago
neilzhao
▴ 30
0
votes
3
replies
2.5k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma
KEGGREST
EGSEA
updated 2.5 years ago by
shepherl
4.1k • written 2.5 years ago by
Jenny Drnevich
★ 2.0k
6
votes
6
replies
3.3k
views
EGSEA error during report generation: "only 0's may be mixed with negative subscripts"
EGSEA
updated 4.1 years ago by
Martin
• 0 • written 5.5 years ago by
pgugger
▴ 70
1
vote
0
replies
852
views
EGSEA - clarification of values in the Stats Table
egsea
limma
5.3 years ago
rocanja
▴ 60
0
votes
2
replies
1.5k
views
How an index is built for each gene set collections using buildCustomIdx() indexing function of EGSEA package?
EGSEA
edgeR
biomaRt
limma
RNA-seq
5.3 years ago
fgol
▴ 10
9
votes
7
replies
21k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 12 months ago by
amin8w
▴ 10 • written 7.4 years ago by
sina.nassiri
▴ 130
0
votes
1
reply
2.5k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 6.8 years ago by
Gordon Smyth
52k • written 6.8 years ago by
belmore
• 0
1
vote
0
replies
1.2k
views
EGSEA install licensed KEGG data
EGSEA
KEGG
EGSEAdata
6.8 years ago
john.thompson
▴ 10
0
votes
0
replies
979
views
Contrast matrix for a continuous covariate - for EGSEA algorithm
design and contrast matrix
egsea
6.9 years ago
Stefano Mangiola
▴ 20
0
votes
5
replies
2.9k
views
EGSEA generateReport() error "no adj nodes"
EGSEA
EGSEA123
updated 7.0 years ago by
Monther Alhamdoosh
▴ 40 • written 7.0 years ago by
Jenny Drnevich
★ 2.0k
1
vote
1
reply
1.3k
views
EGSEA : unable to plot heatmaps.
EGSEA
R bioconductor
7.3 years ago
RV
• 0
0
votes
2
replies
1.7k
views
Ensemble EGSEA (EGSEA): base GSA method failures
egsea
7.7 years ago
irizarnaunk
• 0
2
votes
7
replies
2.1k
views
EGSEA - failing to write report
EGSEA
write
updated 7.8 years ago by
Monther Alhamdoosh
▴ 40 • written 7.8 years ago by
mforde84
▴ 20
2
votes
4
replies
1.9k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
updated 7 months ago by
Chris
▴ 20 • written 7.9 years ago by
Pekka Kohonen
▴ 190
0
votes
4
replies
2.2k
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 8.2 years ago by
Monther Alhamdoosh
▴ 40 • written 8.2 years ago by
yingchen
• 0
18 results • Page
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Replies
Comment: Running multiple KNN queries in parallel
by
SamGG
▴ 360
Thank you for your detailed answer, I appreciate it and your work.
Answer: Running multiple KNN queries in parallel
by
Aaron Lun
★ 28k
That is correct - you can't pass the prebuilt objects to different processes. Maybe `MulticoreParam()` might work on POSIX systems but I'm …
Answer: RSubread output significantly different from bash Subread output
by
Gordon Smyth
52k
The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…
Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square
by
Michael Love
43k
I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…
Comment: sva: get a sv for RIN scores
by
gabriel.hoffman
▴ 170
Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.
Votes
Answer: Running multiple KNN queries in parallel
Answer: Running multiple KNN queries in parallel
Answer: RSubread output significantly different from bash Subread output
Answer: RSubread output significantly different from bash Subread output
Answer: How to annotate a limma Elist raw class object with an annotation file
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Dario Strbenac
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ATpoint
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Gordon Smyth
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