Showing : degs • reset
5
votes
3
replies
29k
views
DESeq2: thousands of NA for pvalues?
deseq2 rna-seq DEGs cooks cutoff
written 6.9 years ago by ▴ 30
0
votes
3
replies
1.1k
views
code syntax for DESeq2 to derive DEGs from a complicated contrast or interaction contrast?
DESeq2 Complicated.contrast DEGs
updated 3.2 years ago by 43k • written 3.2 years ago by • -60
-6
votes
4
replies
1.3k
views
is it possible and reasonable for edgeR to derive DEGs from a complicated contrast or contrast of contrast?
complicated.contrast edgeR DEGs
3.2 years ago Mike • -60
2
votes
3
replies
1.4k
views
Classic or GLM approach in edgeR, Why do I got less DEG in GLM approach?
edgeR DEGs
updated 3.7 years ago by 53k • written 3.7 years ago by • 0
0
votes
2
replies
1.2k
views
Extend comparisons between two groups to more groups in DESEQ2
edgeR DEGs DESEQ2 RNASeqData
3.8 years ago Raito92 ▴ 60
0
votes
3
replies
1.4k
views
EdgeR question: why I got discrepancy results for DEGs when using different ways setting up the models
RNAseq edgeR DEGs
updated 3.7 years ago by 53k • written 4.3 years ago by ▴ 380
0
votes
20
replies
3.7k
views
DESeq2 question: why I got discrepancy results for DEGs when using different ways setting up the models
DESeq2 DEGs
4.4 years ago • updated 4.3 years ago Ming ▴ 380
2
votes
1
reply
9.1k
views
EnhancedVolcano Label Question
RNASeq EnhancedVolcano DEGs
updated 4.4 years ago by ★ 4.0k • written 4.4 years ago by • 0
0
votes
2
replies
1.5k
views
Deseq2 cooks filter for 2 replicates x 3 replicates
DESeq2 Nullcook'svalues 2x3 DEGs
4.7 years ago andreia ▴ 10
4
votes
5
replies
2.1k
views
DEseq2 results
heatmaps DEGs PCA
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by • 0
2
votes
2
replies
1.6k
views
Design formula for pairwise comparison of experimental setup with multiple factors
DEGs DESeq2
4.9 years ago 2021yearsold • 0
0
votes
1
reply
1.2k
views
mircomb analysis from deg's list
mircomb mrna mirna degs interaction
5.4 years ago andreia ▴ 10
0
votes
2
replies
1.2k
views
mirna-mrna interation mircomb (from DEGs and DEMs lists)
deseq2 mircomb degs dems
updated 5.4 years ago by 43k • written 5.4 years ago by ▴ 10
0
votes
1
reply
1.3k
views
compareCluster error: On clusterProfiler DEGs enrichments analysis
clusterProfiler Bioconductor R DEGs
5.4 years ago tpm • 0
3
votes
2
replies
3.7k
views
How to deal with elimination of genes when using filterByExpr function?
edger DEGs normalization
updated 5.8 years ago by 53k • written 5.8 years ago by ▴ 10
2
votes
4
replies
1.5k
views
How to make grouping and contrast for multfactor design?
edger DEGs
5.9 years ago anikng ▴ 10
2
votes
3
replies
1.5k
views
How to correctly set up the design in DESeq2 for RRPP?
deseq2 rrpp DEGs RNAseq
updated 6.0 years ago by 43k • written 6.0 years ago by • 0
0
votes
2
replies
5.4k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 6.3 years ago by ▴ 280 • written 6.3 years ago by • 0
4
votes
3
replies
1.6k
views
Differential profile for only one normal - tumor pair
edger degs paired design
updated 7.4 years ago by 53k • written 7.4 years ago by ▴ 10
3
votes
5
replies
2.8k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma heatmap DEGs
updated 7.8 years ago by 53k • written 7.8 years ago by ▴ 30
3
votes
1
reply
1.5k
views
Common dispersion value using edgeR for DEGs analysis
edgeR DEGS common disperion
updated 8.3 years ago by ★ 29k • written 8.3 years ago by • 0
6
votes
4
replies
3.5k
views
Identification of DEGs through limma analysis
limma microarray DEGs p values lfc
8.4 years ago rkp • 0
22 results • Page 1 of 1
Recent ...
Replies
Comment: Post translational modifications and phosphoproteomics in limpa? by james.eapen • 0
Thank you!
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by ATpoint ★ 5.0k
The donor effect is crystal clear, and absent in these suspicious samples. It strongly argues for a technical problem. If you really need s…
Answer: mzR-Rcpp compiler version issue by Laurent Gatto 1.6k
There are two issues here. First, a warning about mzR, that you can safely ignore. It tells you that mzR was compiled using a different …
Comment: Identifying differentially expressed genes in individual samples from a large co by jamie.gearing ▴ 60
Great. Yes, something descriptive is probably good enough, even if the p-values themselves are not so rigorous. Thanks very much Gordon!
Comment: Co-occurrence Network Analysis between Algae and Bacteria by Stefano Mangiola ▴ 40
Just a placeholder, that we are extending `sccomp` to co-occurrence analyses. Yours could be a good use-case to test first. We will be in t…
Votes
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Identifying differentially expressed genes in individual samples from a large co
Answer: Identifying differentially expressed genes in individual samples from a large co
Bioconductor Seminar Series - Dec 2: Deep-learning Gene Perturbation Effect Prediction
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