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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
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
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
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
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
2
votes
4
replies
1.7k
views
EGSEA usage with microarray data (with vooma)?
EGSEA
gene set testing
vooma
limma voom
gsea
updated 14 days ago by
Chris
▴ 10 • written 7.4 years ago by
Pekka Kohonen
▴ 190
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
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
5.8 years ago
Andrea Carenzo
• 0
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
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
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
0
votes
0
replies
637
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
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
14 results • Page
1 of 1
Recent ...
Replies
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
mgdrnl
• 0
I solved the problem installing the latest R version (4.4.0)
Answer: Get gene symbols for a set of hg19 coordinates
by
ATpoint
★ 4.1k
Simply download a GTF file (for example from GENCODE) matching the current genome and/or annotation version you are using in your project a…
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
ATpoint
★ 4.1k
Try the mirror suggestion for now: https://support.bioconductor.org/p/9153734/#9153755
Comment: unable to access bioconductor packages - qvalue installation failed...
by
ATpoint
★ 4.1k
Seems to be a general problem at the moment, can reproduce. The the mirror suggestion here: https://support.bioconductor.org/p/9153734/#915…
Comment: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
Karosham.Reddy
• 0
Thank you for the suggestion the ENmix version is using is ENmix_1.38.01. I tried your suggested code, R identified the idat files but sti…
Votes
Comment: recount3 problem downloading data from source sra
Not able to install any Bioconductor 3.18 package [unable to access index]
unable to access bioconductor packages - qvalue installation failed...
Not able to install any Bioconductor 3.18 package [unable to access index]
can't open mghp.osn.xsede.org
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