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gene set testing
•
reset
7
votes
13
replies
2.3k
views
Test whether expression levels of two gene sets are significantly different
R
DESeq2
gene set testing
gene expression
7.5 years ago
Jon Bråte
▴ 250
7
votes
6
replies
3.2k
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 8.5 years ago by
Gordon Smyth
50k • written 8.5 years ago by
svlachavas
▴ 830
7
votes
2
replies
1.4k
views
Pre-ranked camera gene set testing with edgeR results
limma
camera
cameraPR
edgeR
gene set testing
updated 5.7 years ago by
Gordon Smyth
50k • written 5.7 years ago by
jamie.gearing
▴ 60
6
votes
10
replies
1.8k
views
Possible implementation of roast/mroast for testing common DE patterns across two different experiments
gene set testing
roast
mroast
differential gene expression
bioconductor
9.0 years ago
svlachavas
▴ 830
4
votes
6
replies
2.0k
views
Gene set Testing with Limma for Agilent IDs probes?
limma
agilent microarrays
gene set testing
annotation
7.3 years ago
Bouzid.a
▴ 20
4
votes
11
replies
2.0k
views
Dealing with duplicated genes in camera gene set testing
limma
camera
gene set testing
ensembl
updated 4.4 years ago by
Robert Castelo
★ 3.3k • written 4.4 years ago by
Jeremy Beales
▴ 10
3
votes
4
replies
1.6k
views
Competitive gene set testing between two sets of genes
gene set testing
camera
edger
updated 7.9 years ago by
Gordon Smyth
50k • written 7.9 years ago by
le2336
▴ 20
2
votes
4
replies
1.7k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
updated 13 days ago by
Chris
▴ 10 • written 7.4 years ago by
Pekka Kohonen
▴ 190
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 5.6 years ago by
Gordon Smyth
50k • written 5.6 years ago by
svlachavas
▴ 830
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
5.7 years ago
Andrea Carenzo
• 0
1
vote
5
replies
2.1k
views
Confused by results from CAMERA gene set testing
limma
camera
gene set testing
8.1 years ago
claire.n.levy
▴ 10
1
vote
0
replies
1.3k
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
8.1 years ago
m.fletcher
▴ 20
0
votes
0
replies
636
views
Interpretation of mroast p-value results for gene set testing of specific molecular signatures using microarray data
mroast
camera
gene set testing
3.6 years ago
svlachavas
▴ 830
0
votes
1
reply
1.3k
views
GAGE function and the same.dir option
gage
gene set testing
updated 6.0 years ago by
Luo Weijun
★ 1.6k • written 6.0 years ago by
Aurora
▴ 20
14 results • Page
1 of 1
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Replies
Comment: recount3 problem downloading data from source sra
by
PABLO ANTONIO
• 0
Hello Leonardo, Thanks for commenting on possible solutions. I noticed comparing your session info that I was using the previous version o…
Comment: seqlevelsStyle() not working
by
websterdelacruz2087055
• 0
Specify the new URL new_url <- "https://hgdownload2.cse.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz" Use the new URL to download th…
Comment: SGSeq: moving toward diffex from SGSeq analysis
by
Sara
• 0
Yes, thank you. I have another error now, may you please guide me. here is the code that I used till using vep: ```r # bam_path <- "~/pat…
Comment: slingshot: error with plot3d.SlingshotDataSet
by
Happiness
• 0
Hi please i am encountering similar issue how did you fix it. Here is the code: ## Run Slingshot p3.neuron.sds <- slingshot(Embeddings(…
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
by
mohammedtoufiq91
▴ 10
https://support.bioconductor.org/u/5106/ thank you very much.
Votes
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
Comment: Ensembl plants at annotationHub?
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
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