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EGSEA
•
reset
3
votes
5
replies
684
views
Help with running egsea()
EGSEA
7 months ago
Chris
▴ 20
0
votes
1
reply
469
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
609
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
997
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
855
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
6.9 years ago
john.thompson
▴ 10
0
votes
0
replies
982
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 7.9 years ago by
Monther Alhamdoosh
▴ 40 • written 7.9 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 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: miRTarRnaseq library
by
mercedeh.movassagh
▴ 20
Maria please read the mirTarRnaSeq paper. In particular, Supplemental Table 2, clarifies all the statistical models, inputs and outputs. If…
Comment: Help using rtracklayer for gene ID extraction
by
James W. MacDonald
67k
Telling me you can't do something without showing what you tried is not helpful. When posting here, try to put yourself in the shoes of peo…
Comment: miRTarRnaseq library
by
María Calvo
• 0
Hello Mercedeh, excuse me for not explaining it adecuately, Im using the "Part3 - Identify significant miRNA mRNA relationships for 2 time …
Answer: Need new version : tx2gene.gencode.v47.csv
by
Guido Hooiveld
★ 4.1k
Assuming that you would like to import the results from `salmon`, it is highly recommended to now use `tximeta`. By doing so, all required …
Comment: Help using rtracklayer for gene ID extraction
by
Aichatou
• 0
Hello, Please disregard the previous post. it's working now, i think. I am able to create the txdb object but I can't see all the other inf…
Votes
Whether to build DESeq2 model with all data and then contrast groups or subset groups first, build model and then contrast?
Answer: Feature Counts - potential bug with outfile.jcounts
Answer: Feature Counts - potential bug with outfile.jcounts
Answer: Pre-filtering TPM kallisto for ssGSEA / DESeq2
Answer: Mapping Between GenBank ID's and Uniprot
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