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Showing :
egsea
•
reset
3
votes
5
replies
773
views
Help with running egsea()
EGSEA
9 months ago
Chris
▴ 20
0
votes
1
reply
511
views
EGSEA with Affymetrix data
EGSEA
updated 15 months ago by
James W. MacDonald
68k • written 15 months ago by
cverschoor
• 0
0
votes
1
reply
654
views
Is it possible to use pre-ranked list in EGSEA?
EGSEA
EGSEAdata
EGSEA123
DifferentialExpression
updated 18 months ago by
James W. MacDonald
68k • written 18 months ago by
Tiago
• 0
0
votes
1
reply
1.0k
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
22 months ago
neilzhao
▴ 30
0
votes
3
replies
2.7k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma
KEGGREST
EGSEA
updated 2.7 years ago by
shepherl
4.1k • written 2.7 years ago by
Jenny Drnevich
★ 2.0k
6
votes
6
replies
3.4k
views
EGSEA error during report generation: "only 0's may be mixed with negative subscripts"
EGSEA
updated 4.3 years ago by
Martin
• 0 • written 5.7 years ago by
pgugger
▴ 70
1
vote
0
replies
896
views
EGSEA - clarification of values in the Stats Table
egsea
limma
5.5 years ago
rocanja
▴ 60
0
votes
2
replies
1.6k
views
How an index is built for each gene set collections using buildCustomIdx() indexing function of EGSEA package?
EGSEA
edgeR
biomaRt
limma
RNA-seq
5.5 years ago
fgol
▴ 10
9
votes
7
replies
21k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 14 months ago by
amin8w
▴ 10 • written 7.6 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 7.0 years ago by
Gordon Smyth
52k • written 7.0 years ago by
belmore
• 0
1
vote
0
replies
1.3k
views
EGSEA install licensed KEGG data
EGSEA
KEGG
EGSEAdata
7.0 years ago
john.thompson
▴ 10
0
votes
0
replies
1.0k
views
Contrast matrix for a continuous covariate - for EGSEA algorithm
design and contrast matrix
egsea
7.1 years ago
Stefano Mangiola
▴ 20
0
votes
5
replies
3.0k
views
EGSEA generateReport() error "no adj nodes"
EGSEA
EGSEA123
updated 7.2 years ago by
Monther Alhamdoosh
▴ 40 • written 7.2 years ago by
Jenny Drnevich
★ 2.0k
1
vote
1
reply
1.4k
views
EGSEA : unable to plot heatmaps.
EGSEA
R bioconductor
7.5 years ago
RV
• 0
0
votes
2
replies
1.7k
views
Ensemble EGSEA (EGSEA): base GSA method failures
egsea
7.9 years ago
irizarnaunk
• 0
2
votes
7
replies
2.1k
views
EGSEA - failing to write report
EGSEA
write
updated 8.0 years ago by
Monther Alhamdoosh
▴ 40 • written 8.0 years ago by
mforde84
▴ 20
2
votes
4
replies
2.0k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
updated 9 months ago by
Chris
▴ 20 • written 8.1 years ago by
Pekka Kohonen
▴ 190
0
votes
4
replies
2.3k
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 8.4 years ago by
Monther Alhamdoosh
▴ 40 • written 8.4 years ago by
yingchen
• 0
18 results • Page
1 of 1
Recent ...
Replies
Comment: Differential variance analysis - can i use deseq2
by
Michael Love
43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Answer: Use of limma R package with targeted proteomics for DE analysis
by
Gordon Smyth
52k
It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…
Comment: WGCNA
by
pammelala304
• 0
Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.
Comment: Does anyone have the command to download all of the core_nt using blast_db_get()
by
Matthew Thornton
▴ 380
Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…
Comment: normalizatino of dna methylation EPIC data
by
user_bioinfo
• 0
yes actually that's why I did, and its all good! thank you for your response
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
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shepherl
4.1k
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Hugo Varet
▴ 80
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Fred Hutch (Recruiting)
▴ 40
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Wolfgang Huber
★ 13k
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picasa1983
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