Showing : DEGs • reset
5
votes
3
replies
28k
views
DESeq2: thousands of NA for pvalues?
deseq2 rna-seq DEGs cooks cutoff
written 6.3 years ago by ▴ 30
0
votes
3
replies
912
views
code syntax for DESeq2 to derive DEGs from a complicated contrast or interaction contrast?
DESeq2 Complicated.contrast DEGs
updated 2.6 years ago by 43k • written 2.6 years ago by • -60
-6
votes
4
replies
1.1k
views
is it possible and reasonable for edgeR to derive DEGs from a complicated contrast or contrast of contrast?
complicated.contrast edgeR DEGs
2.6 years ago Mike • -60
2
votes
3
replies
1.2k
views
Classic or GLM approach in edgeR, Why do I got less DEG in GLM approach?
edgeR DEGs
updated 3.1 years ago by 52k • written 3.1 years ago by • 0
0
votes
2
replies
1.1k
views
Extend comparisons between two groups to more groups in DESEQ2
edgeR DEGs DESEQ2 RNASeqData
3.2 years ago Raito92 ▴ 60
0
votes
3
replies
1.3k
views
EdgeR question: why I got discrepancy results for DEGs when using different ways setting up the models
RNAseq edgeR DEGs
updated 3.2 years ago by 52k • written 3.7 years ago by ▴ 380
0
votes
20
replies
3.2k
views
DESeq2 question: why I got discrepancy results for DEGs when using different ways setting up the models
DESeq2 DEGs
3.8 years ago • updated 3.7 years ago Ming ▴ 380
2
votes
1
reply
8.5k
views
EnhancedVolcano Label Question
RNASeq EnhancedVolcano DEGs
updated 3.8 years ago by ★ 4.0k • written 3.8 years ago by • 0
0
votes
2
replies
1.3k
views
Deseq2 cooks filter for 2 replicates x 3 replicates
DESeq2 Nullcook'svalues 2x3 DEGs
4.1 years ago andreia ▴ 10
4
votes
5
replies
1.8k
views
DEseq2 results
heatmaps DEGs PCA
updated 4.2 years ago by ★ 4.0k • written 4.2 years ago by • 0
2
votes
2
replies
1.3k
views
Design formula for pairwise comparison of experimental setup with multiple factors
DEGs DESeq2
4.3 years ago 2021yearsold • 0
0
votes
1
reply
1.1k
views
mircomb analysis from deg's list
mircomb mrna mirna degs interaction
4.8 years ago andreia ▴ 10
0
votes
2
replies
1.0k
views
mirna-mrna interation mircomb (from DEGs and DEMs lists)
deseq2 mircomb degs dems
updated 4.8 years ago by 43k • written 4.8 years ago by ▴ 10
0
votes
1
reply
1.1k
views
compareCluster error: On clusterProfiler DEGs enrichments analysis
clusterProfiler Bioconductor R DEGs
4.9 years ago tpm • 0
3
votes
2
replies
3.3k
views
How to deal with elimination of genes when using filterByExpr function?
edger DEGs normalization
updated 5.3 years ago by 52k • written 5.3 years ago by ▴ 10
2
votes
4
replies
1.3k
views
How to make grouping and contrast for multfactor design?
edger DEGs
5.3 years ago anikng ▴ 10
2
votes
3
replies
1.3k
views
How to correctly set up the design in DESeq2 for RRPP?
deseq2 rrpp DEGs RNAseq
updated 5.4 years ago by 43k • written 5.4 years ago by • 0
0
votes
2
replies
5.0k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 5.8 years ago by ▴ 280 • written 5.8 years ago by • 0
4
votes
3
replies
1.4k
views
Differential profile for only one normal - tumor pair
edger degs paired design
updated 6.8 years ago by 52k • written 6.8 years ago by ▴ 10
3
votes
5
replies
2.6k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma heatmap DEGs
updated 7.3 years ago by 52k • written 7.3 years ago by ▴ 30
3
votes
1
reply
1.3k
views
Common dispersion value using edgeR for DEGs analysis
edgeR DEGS common disperion
updated 7.7 years ago by ★ 28k • written 7.7 years ago by • 0
6
votes
4
replies
3.3k
views
Identification of DEGs through limma analysis
limma microarray DEGs p values lfc
7.9 years ago • updated 7.8 years ago rkp • 0
22 results • Page 1 of 1
Recent ...
Replies
Comment: Module membership vs gene significance result and Modules-trait relationships re by Vinaya • 0
Hi. I am having the same issue, and haven't found a solution still.
Comment: Feature Counts - potential bug with outfile.jcounts by Tom • 0
[Penistone Locksmith][1] I think that would be a great idea; a novel junction to annotated junction proximity output column. So if the nove…
Comment: Filtering after DESeq by caroline.zanchi • 0
I am going to try this right now, thanks !
Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq by ATpoint ★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Votes
Answer: CluserProfiler message "No gene can be mapped"
A: Minfi issue: return code from pthread_create() is 22
Comment: Filtering after DESeq
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
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