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degs
•
reset
6
votes
4
replies
2.7k
views
Identification of DEGs through limma analysis
limma
microarray
DEGs
p values
lfc
6.9 years ago
rkp
• 0
0
votes
20
replies
2.4k
views
DESeq2 question: why I got discrepancy results for DEGs when using different ways setting up the models
DESeq2
DEGs
2.8 years ago
Ming
▴ 380
3
votes
5
replies
2.1k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma
heatmap
DEGs
updated 6.3 years ago by
Gordon Smyth
50k • written 6.3 years ago by
lawarde.ankita1
▴ 30
4
votes
3
replies
1.1k
views
Differential profile for only one normal - tumor pair
edger
degs
paired design
updated 5.8 years ago by
Gordon Smyth
50k • written 5.8 years ago by
takumima
▴ 10
5
votes
2
replies
21k
views
DESeq2: thousands of NA for pvalues?
deseq2
rna-seq
DEGs
cooks cutoff
updated 2.3 years ago by
rickap
• 0 • written 5.3 years ago by
aishu.jp
▴ 30
0
votes
2
replies
4.1k
views
Heatmap of selected genes
heatmap
DEGs
RNAseq
DESeq2
updated 4.8 years ago by
mikhael.manurung
▴ 270 • written 4.8 years ago by
danikadigiacomo
• 0
2
votes
3
replies
992
views
How to correctly set up the design in DESeq2 for RRPP?
deseq2
rrpp
DEGs
RNAseq
updated 4.5 years ago by
Michael Love
41k • written 4.5 years ago by
gmchaput
• 0
2
votes
4
replies
993
views
How to make grouping and contrast for multfactor design?
edger
DEGs
4.3 years ago
anikng
▴ 10
3
votes
2
replies
2.3k
views
How to deal with elimination of genes when using filterByExpr function?
edger
DEGs
normalization
updated 4.3 years ago by
Gordon Smyth
50k • written 4.3 years ago by
anikng
▴ 10
0
votes
1
reply
836
views
mircomb analysis from deg's list
mircomb
mrna
mirna
degs
interaction
3.9 years ago
andreia
▴ 10
0
votes
2
replies
791
views
mirna-mrna interation mircomb (from DEGs and DEMs lists)
deseq2
mircomb
degs
dems
updated 3.9 years ago by
Michael Love
41k • written 3.9 years ago by
andreia
▴ 10
2
votes
2
replies
1.0k
views
Design formula for pairwise comparison of experimental setup with multiple factors
DEGs
DESeq2
3.3 years ago
2021yearsold
• 0
4
votes
5
replies
1.3k
views
DEseq2 results
heatmaps
DEGs
PCA
updated 3.2 years ago by
Kevin Blighe
★ 3.9k • written 3.2 years ago by
MOHAMMAD
• 0
0
votes
2
replies
984
views
Deseq2 cooks filter for 2 replicates x 3 replicates
DESeq2
Nullcook'svalues
2x3
DEGs
3.1 years ago
andreia
▴ 10
0
votes
3
replies
628
views
code syntax for DESeq2 to derive DEGs from a complicated contrast or interaction contrast?
DESeq2
Complicated.contrast
DEGs
updated 20 months ago by
Michael Love
41k • written 20 months ago by
Mike
• -60
0
votes
3
replies
964
views
EdgeR question: why I got discrepancy results for DEGs when using different ways setting up the models
RNAseq
edgeR
DEGs
updated 2.2 years ago by
Gordon Smyth
50k • written 2.8 years ago by
Ming
▴ 380
0
votes
2
replies
781
views
Extend comparisons between two groups to more groups in DESEQ2
edgeR
DEGs
DESEQ2
RNASeqData
2.3 years ago
Raito92
▴ 60
2
votes
1
reply
4.9k
views
EnhancedVolcano Label Question
RNASeq
EnhancedVolcano
DEGs
updated 2.9 years ago by
Kevin Blighe
★ 3.9k • written 2.9 years ago by
robledoj13
• 0
2
votes
3
replies
910
views
Classic or GLM approach in edgeR, Why do I got less DEG in GLM approach?
edgeR
DEGs
updated 2.1 years ago by
Gordon Smyth
50k • written 2.1 years ago by
RR
• 0
-6
votes
4
replies
841
views
is it possible and reasonable for edgeR to derive DEGs from a complicated contrast or contrast of contrast?
complicated.contrast
edgeR
DEGs
20 months ago
Mike
• -60
3
votes
1
reply
1.1k
views
Common dispersion value using edgeR for DEGs analysis
edgeR
DEGS
common disperion
updated 6.7 years ago by
Aaron Lun
★ 28k • written 6.7 years ago by
baus87
• 0
0
votes
1
reply
883
views
compareCluster error: On clusterProfiler DEGs enrichments analysis
clusterProfiler
Bioconductor
R
DEGs
3.9 years ago
tpm
• 0
22 results • Page
1 of 1
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Replies
Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
Answer: Trim/Filter out-of-bounds GRanges
by
Michael Love
41k
https://support.bioconductor.org/p/73432/#73448
Comment: Couldn't connect to server while using "pathways"
by
Michael Love
41k
You've put the tag "DESeq2" which results in an email to the maintainer, me, that I should respond to a post on the support site. Can you …
Votes
Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
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