Showing : DEGs • reset
0
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3
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633
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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
845
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
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3
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922
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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
794
views
Extend comparisons between two groups to more groups in DESEQ2
edgeR DEGs DESEQ2 RNASeqData
2.3 years ago Raito92 ▴ 60
0
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3
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977
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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
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2.4k
views
DESeq2 question: why I got discrepancy results for DEGs when using different ways setting up the models
DESeq2 DEGs
2.9 years ago • updated 2.8 years ago Ming ▴ 380
2
votes
1
reply
5.1k
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
22k
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
994
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
1.4k
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
3.4 years ago 2021yearsold • 0
0
votes
1
reply
842
views
mircomb analysis from deg's list
mircomb mrna mirna degs interaction
3.9 years ago andreia ▴ 10
0
votes
2
replies
794
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
890
views
compareCluster error: On clusterProfiler DEGs enrichments analysis
clusterProfiler Bioconductor R DEGs
3.9 years ago tpm • 0
3
votes
2
replies
2.4k
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
1.0k
views
How to make grouping and contrast for multfactor design?
edger DEGs
4.4 years ago anikng ▴ 10
2
votes
3
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1.0k
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
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1.1k
views
Differential profile for only one normal - tumor pair
edger degs paired design
updated 5.9 years ago by 50k • written 5.9 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 6.8 years ago by ★ 28k • written 6.8 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
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
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Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
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So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
Votes
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
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