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deseq2 nested multifactorial analysis
DESeq2
multifactorial
nested
updated 2.4 years ago by
Basti
▴ 780 • written 2.4 years ago by
jd
• 0
0
votes
3
replies
1.5k
views
Is it possible to specify random nested factor in DEseq2?
nested
DESeq2
updated 3.5 years ago by
Michael Love
43k • written 3.7 years ago by
yampolsk
• 0
0
votes
3
replies
1.5k
views
Nested design- phyloseq_to_deseq
deseq2
Phyloseq
Nested
updated 5.4 years ago by
Michael Love
43k • written 5.4 years ago by
mpuli011
• 0
1
vote
2
replies
1.2k
views
Correct DESeq2 interaction design and results with paired and nested data
deseq2
Paired
Nested
updated 5.6 years ago by
Michael Love
43k • written 5.6 years ago by
julia.chariker
▴ 10
0
votes
3
replies
1.4k
views
DESeq2 - nested samples (individuals) - time course - conditions
deseq2
nested
de
updated 5.8 years ago by
Michael Love
43k • written 5.8 years ago by
gaio.transposon
• 0
4
votes
7
replies
1.7k
views
EdgeR between/within comparisons (3.5) with nested non-balanced data set
edgeR
nested
glm
glmQLFit
updated 6.3 years ago by
Aaron Lun
★ 29k • written 6.4 years ago by
jcalis
▴ 10
1
vote
1
reply
2.8k
views
EdgeR:Calculating differential expression within/between groups in nested designs
edger
nested
design matrix
differential expression
updated 10.5 years ago by
Aaron Lun
★ 29k • written 10.5 years ago by
Mauve
• 0
4
votes
5
replies
2.3k
views
edgeR: estimating dispersion for nested designs
edger
nested
estimatedispersions
10.6 years ago • updated 10.5 years ago
Mauve
• 0
8 results • Page
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Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
ATpoint
★ 4.9k
No, cells from the same donor are correlated due to the donor effect. There is literature on this you should read to get started. https:/…
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
Raya
• 0
Wouldn't each sample in the single cell rna seq act as a biological replicate? each condition (eg: mab3_20C) has ~70 single cell samples.
Comment: Getting way too many DEGs with LRT for time-series RNA-seq!
by
James W. MacDonald
68k
>Sequential post-exposure measurements of the same set of genes is not the same thing as having multiple treated groups! They are not the…
Comment: Getting way too many DEGs with LRT for time-series RNA-seq!
by
Denise
• 0
Sequential post-exposure measurements of the same set of genes is not the same thing as having multiple treated groups! And I suppose ther…
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
ATpoint
★ 4.9k
There is no biological replication here. This is not supported by DESeq2 (or mos credible statistical tools). You would need different dono…
Votes
Comment: DESeq2 used with zinbwave weights - Differences on contrasts calculations
Comment: DESeq2 used with zinbwave weights - Differences on contrasts calculations
Comment: DESeq2 used with zinbwave weights - Differences on contrasts calculations
Answer: Are voomByGroup and voomLmFit compatible?
Answer: p-adjusted values in multiple comparisons
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