Showing : DEGS • reset
0
votes
3
replies
629
views
code syntax for DESeq2 to derive DEGs from a complicated contrast or interaction contrast?
DESeq2 Complicated.contrast DEGs
updated 20 months ago by 42k • written 20 months ago by • -60
-6
votes
4
replies
842
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
913
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
2
replies
783
views
Extend comparisons between two groups to more groups in DESEQ2
edgeR DEGs DESEQ2 RNASeqData
2.3 years ago Raito92 ▴ 60
0
votes
3
replies
966
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
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
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
2
replies
987
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 42k • written 3.9 years ago by ▴ 10
0
votes
1
reply
884
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
994
views
How to make grouping and contrast for multfactor design?
edger DEGs
4.3 years ago anikng ▴ 10
2
votes
3
replies
993
views
How to correctly set up the design in DESeq2 for RRPP?
deseq2 rrpp DEGs RNAseq
updated 4.5 years ago by 42k • 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: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…
Comment: Memory errors using read.bismark? by Juan Higareda • 0
Thanks a lot Peter, We solved the problem, IT had implemented a policy of RAM usage that started a conflict with any RAM-hungry process, m…
Answer: meffil.snp.concordance by James W. MacDonald 65k
This support site is meant to help people with technical questions about Bioconductor packages. The `meffil` package is not Bioconductor, n…
Votes
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Awards • All
Popular Question to Gyan Prakash Mishra ▴ 10
Popular Question to Gordon Smyth 50k
Popular Question to WouterDeCoster ▴ 130
Scholar to Michael Love 42k
Popular Question to Malcolm Cook ★ 1.6k
Locations • All
United States, just now
United States, 3 minutes ago
India, 13 minutes ago
WEHI, Melbourne, Australia, 33 minutes ago
INDIA, 39 minutes ago
Traffic: 579 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6