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ape
•
reset
0
votes
2
replies
1.3k
views
ape::dnds produces nan value
R
ape
dnds
nan
nanotubes
3.1 years ago
Working
• 0
0
votes
1
reply
1.9k
views
Difficulty with msaConvert function in R package
ape
msa
updated 3.8 years ago by
UBod
▴ 300 • written 4.1 years ago by
João Tadeu
• 0
0
votes
1
reply
1.6k
views
Issues while downloading supraHex package in Linux
supraHex
nlme
hexbin
ape
updated 8.3 years ago by
Martin Morgan
25k • written 8.3 years ago by
agneet257
• 0
0
votes
0
replies
1.7k
views
Phylogenetic tree from marker genes
ape
phyloseq
dist
metagenomics
8.7 years ago
David
▴ 860
0
votes
1
reply
4.6k
views
ape - delete bootstrap values (node.labels) less than a certain value
ape
bootstrap
node
phylogenetic
tree
10.6 years ago
wd
▴ 30
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Answer: limpa analysis advice
by
Gordon Smyth
53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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