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lfc
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7
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1.2k
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LRT test followed by filtering based on LFC
deseq2
LFC
LRT
written 4.8 years ago by
sally.badawi
• 0
1
vote
1
reply
626
views
Gene wise dispersion estimate Process - From the prior to the posterior
GLM
prior
DESeq
LFC
updated 18 months ago by
Michael Love
41k • written 18 months ago by
stew
• 0
0
votes
1
reply
926
views
Filtering DESeq2 results for | LFC | > 1 genes
RNAseq
LFC
DEseq
2.5 years ago
ayy2110
• 0
0
votes
6
replies
1.2k
views
large range of LFC in DESeq2
deseq2
lfc
betaprior
updated 13 months ago by
Michael Love
41k • written 5.0 years ago by
Mariaxi
• 0
16
votes
7
replies
12k
views
DESeq2 lfcShrink() usage of coef vs. usage of contrast
deseq2
lfc
coef
contrast
updated 6.4 years ago by
Michael Love
41k • written 6.4 years ago by
Anke Busch
▴ 10
6
votes
4
replies
2.4k
views
Identification of DEGs through limma analysis
limma
microarray
DEGs
p values
lfc
6.5 years ago
rkp
• 0
4
votes
14
replies
16k
views
standard error value (lfcSE) returned by DeSeq2
deseq2
deseq
lfc
lfcse
standard error
updated 6.7 years ago by
rraadd_8
• 0 • written 6.8 years ago by
tootiki
• 0
2
votes
1
reply
1.9k
views
Using Limma to identify any differences between multiple treatment groups (without making pairwise comparisons)
microarray
limma
multiple treatments
lfc
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
brionyk9
• 0
8 results • Page
1 of 1
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Replies
Answer: What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)
by
James W. MacDonald
64k
There are two types of probes used by Illumina. The type I probes bind directly to the CpG site and have two different probes (one for a me…
Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
by
Michael Love
41k
Then for the remaining genes that you don't think are DE, just plot like this: ``` dds_sub <- dds[,dds$condition %in% c("x","y")] dropleve…
Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
by
samer
• 0
yes i turned it off @mikelove
Answer: autonomics: example("read_somascan", package = "autonomics") fails, but not on B
by
Mike Smith
★ 6.2k
It looks like `autonomics` uses `BiocFileCache` to create a local copy of the data and save repeat downloading. Given the (relatively) rec…
Answer: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
by
Michael Love
41k
I notice you are using `betaPrior=TRUE`. We have set to default and recommended `betaPrior=FALSE` for many years (since version 1.16 in 201…
Votes
Answer: WGCNA documentation not available
Comment: Can the limma package be applied to Log2 RUV-normalized data?
Comment: Can the limma package be applied to Log2 RUV-normalized data?
Answer: Correct the batch effect in methylation analysis in R
Comment: Why is DMRcate not available for Bioconductor version 3.18?
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