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Why DESeq2 gives large logfold for group with all zero count?
microbiome
16s
deseq2
differential gene expression
6.9 years ago
lanhuong
▴ 20
0
votes
5
replies
3.6k
views
DESeq2 16s microbiome size factors
deseq2
metagenomeseq
rnaseq
16s
microbiome
updated 7.7 years ago by
Joseph Nathaniel Paulson
▴ 280 • written 7.7 years ago by
jbatsx
• 0
0
votes
2
replies
863
views
DESeq2: seeking advice regarding before/after mutliple treatements + extra factor
deseq2
16s
microbiome
updated 4.3 years ago by
Michael Love
42k • written 4.3 years ago by
mstagliamonte
▴ 10
0
votes
2
replies
815
views
Subsetting DESEQ2 VST Microbiome Data
DESeq2
16S
VST
2.1 years ago
vollkorrn
• 0
2
votes
1
reply
1.7k
views
Deseq2 for 16s Data
Microbiome
16s
Deseq2
16srRNA
updated 2.1 years ago by
Michael Love
42k • written 2.1 years ago by
Katelyn
▴ 10
0
votes
1
reply
1.6k
views
Import_biom with tree problem
phyloseq
mothur
16s
5.6 years ago
andrebolerbarros
▴ 20
0
votes
0
replies
918
views
Aldex2 feature request - controlling for additional variables
ALDEx2
ALDEx
microbiome
16s
5.4 years ago
mstagliamonte
▴ 10
7 results • Page
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Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
JKim
• 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
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
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