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gene set testing
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677
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Interpretation of mroast p-value results for gene set testing of specific molecular signatures using microarray data
mroast
camera
gene set testing
3.8 years ago
svlachavas
▴ 830
4
votes
11
replies
2.2k
views
Dealing with duplicated genes in camera gene set testing
limma
camera
gene set testing
ensembl
updated 4.6 years ago by
Robert Castelo
★ 3.3k • written 4.6 years ago by
Jeremy Beales
▴ 10
2
votes
3
replies
1.4k
views
Perform limma based gene-set testing for a two-group comparison in a microarray dataset regarding specific biological processes
limma
agilent microarrays
mroast
fry gene tests
gene set testing
updated 5.8 years ago by
Gordon Smyth
51k • written 5.8 years ago by
svlachavas
▴ 830
7
votes
2
replies
1.5k
views
Pre-ranked camera gene set testing with edgeR results
limma
camera
cameraPR
edgeR
gene set testing
updated 5.9 years ago by
Gordon Smyth
51k • written 5.9 years ago by
jamie.gearing
▴ 60
1
vote
4
replies
1.3k
views
Do the gene set statistics of the ROAST paper correspond to those implemented in the .roastEffects R function?
limma
roast
statistics
source code
gene set testing
5.9 years ago
Andrea Carenzo
• 0
0
votes
1
reply
1.4k
views
GAGE function and the same.dir option
gage
gene set testing
updated 6.2 years ago by
Luo Weijun
★ 1.6k • written 6.2 years ago by
Aurora
▴ 20
2
votes
4
replies
1.8k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
updated 11 weeks ago by
Chris
▴ 20 • written 7.6 years ago by
Pekka Kohonen
▴ 190
4
votes
6
replies
2.1k
views
Gene set Testing with Limma for Agilent IDs probes?
limma
agilent microarrays
gene set testing
annotation
7.5 years ago
Bouzid.a
▴ 20
7
votes
13
replies
2.4k
views
Test whether expression levels of two gene sets are significantly different
R
DESeq2
gene set testing
gene expression
7.7 years ago
Jon Bråte
▴ 250
3
votes
4
replies
1.6k
views
Competitive gene set testing between two sets of genes
gene set testing
camera
edger
updated 8.1 years ago by
Gordon Smyth
51k • written 8.1 years ago by
le2336
▴ 20
1
vote
0
replies
1.4k
views
Gene Set Testing or GSEA for functional annotation of co-expressed ncRNA and coding genes
gsea
ncrna
coexpression
gene set analysis
gene set testing
8.3 years ago
m.fletcher
▴ 20
1
vote
5
replies
2.2k
views
Confused by results from CAMERA gene set testing
limma
camera
gene set testing
8.3 years ago
claire.n.levy
▴ 10
7
votes
6
replies
3.3k
views
Interpretation of mroast gene set analysis in R and appropriate use of the function barcode plot regarding a microarray dataset
limma
mroast
barcodeplot
KEGG
gene set testing
updated 8.7 years ago by
Gordon Smyth
51k • written 8.7 years ago by
svlachavas
▴ 830
6
votes
10
replies
1.9k
views
Possible implementation of roast/mroast for testing common DE patterns across two different experiments
gene set testing
roast
mroast
differential gene expression
bioconductor
9.2 years ago
svlachavas
▴ 830
14 results • Page
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Replies
Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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Lluís Revilla Sancho
▴ 730
Popular Question
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maltethodberg
▴ 180
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Michael Love
42k
Popular Question
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Leonardo Collado Torres
★ 1.1k
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to
Gordon Smyth
51k
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