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Question about extracting co-efficients for pairwise comparisons in edgeR
limma
fit
design
RNASeq
edgeR
15 days ago
Sabiha
▴ 20
0
votes
5
replies
2.5k
views
DESeq2: How to find out how well the model fits the data?
rnaseq
linear model
fit
deseq2
updated 6.9 years ago by
Michael Love
41k • written 6.9 years ago by
lina.faller
• 0
3
votes
2
replies
1.8k
views
DEXSeq throws a warning - rank-deficient matrix
dexseq
fit
matrix
warning
updated 2.4 years ago by
koushik
• 0 • written 7.1 years ago by
Assa Yeroslaviz
★ 1.5k
1
vote
7
replies
2.1k
views
Limma linear models
limma
goodness
fit
linear
model
updated 9.2 years ago by
Gordon Smyth
50k • written 9.2 years ago by
nonCodingGene
▴ 10
4 results • Page
1 of 1
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Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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