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ERCC
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Incorporating RUVg results into ImpulseDE2 model
ImpulseDE2
ImpulseDE
ERCC
RUVSeq
2.6 years ago • updated 2.5 years ago
Mallory
▴ 10
2
votes
2
replies
2.6k
views
Using the ERCC spike as a normalization factor for a custom algorithm
ERCC
rna-seq
edgeR
tmm normalised values
updated 7.2 years ago by
Aaron Lun
★ 28k • written 7.2 years ago by
what_theheck24
• 0
25
votes
7
replies
15k
views
Usability of ERCC spike-ins in standard RNAseq experiments
RNAseq
deseq2
ercc
updated 7.5 years ago by
Simon Anders
★ 3.7k • written 7.5 years ago by
mbeckste
▴ 30
16
votes
5
replies
7.4k
views
DESeq and Limma+Voom Normalization for Rna-Seq Data Using Ercc Spike-In
limma
voom
deseq
normalization
ercc
updated 8.5 years ago by
Gordon Smyth
50k • written 8.5 years ago by
komal.rathi
▴ 120
8
votes
5
replies
5.2k
views
edgeR and Normalization of RNAseq data using ERCC controls
edger
ercc
9.4 years ago
John
▴ 10
9
votes
4
replies
2.8k
views
News:
Experimental data package 'seqc'
seqc
rsubread
featurecounts
subjunc
ercc
News
9.5 years ago
Wei Shi
★ 3.6k
6 results • Page
1 of 1
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Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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