Showing : DEGS • reset
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 41k • written 20 months ago by • -60
-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
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 50k • written 2.1 years ago by • 0
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 50k • written 2.8 years ago by ▴ 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
5
votes
2
replies
21k
views
DESeq2: thousands of NA for pvalues?
deseq2 rna-seq DEGs cooks cutoff
updated 2.3 years ago by • 0 • written 5.3 years ago by ▴ 30
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
2
votes
1
reply
4.9k
views
EnhancedVolcano Label Question
RNASeq EnhancedVolcano DEGs
updated 2.9 years ago by ★ 3.9k • written 2.9 years ago by • 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
4
votes
5
replies
1.3k
views
DEseq2 results
heatmaps DEGs PCA
updated 3.2 years ago by ★ 3.9k • written 3.2 years ago by • 0
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
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 41k • written 3.9 years ago by ▴ 10
0
votes
1
reply
883
views
compareCluster error: On clusterProfiler DEGs enrichments analysis
clusterProfiler Bioconductor R DEGs
3.9 years ago tpm • 0
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 50k • written 4.3 years ago by ▴ 10
2
votes
4
replies
993
views
How to make grouping and contrast for multfactor design?
edger DEGs
4.3 years ago anikng ▴ 10
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 41k • written 4.5 years ago by • 0
0
votes
2
replies
4.1k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 4.8 years ago by ▴ 270 • written 4.8 years ago by • 0
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 50k • written 5.8 years ago by ▴ 10
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 50k • written 6.3 years ago by ▴ 30
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 ★ 28k • written 6.7 years ago by • 0
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
22 results • Page 1 of 1
Recent ...
Replies
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 …
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Vincent J. Carey, Jr. 6.7k
btw that was run on M1 mac
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Vincent J. Carey, Jr. 6.7k
the test is not portable > aa <- aa_mutmat(acc = "MIYS930101", aaindex = "aaindex2") > str(aa) num [1:20, 1:20] 0.34 -0.0…
Comment: Method to find pathways different between 2 groups by Chris • 0
Sorry for not clear. I just try to find papers use this method for learning purpose. Which gives more context and detail examples, so I may…
Comment: Improving the design matrices vignette in RNAseq123 by Lluís Revilla Sancho ▴ 730
Cool. Thanks for looking into it.
Votes
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
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