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Defining BSgenome -> GRanges S4 coercer without package attaching
BSgenome
methods
GenomicRanges
6.4 years ago
Aditya
▴ 160
0
votes
1
reply
1.3k
views
Why does S4Vectors define three functions for Vector -> data.frame coercion
S4Vectors
methods
6.4 years ago
Aditya
▴ 160
2
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2
replies
1.8k
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SetMethod to dispatch on class in unattached package
s4
methods
SummarizedExperiment
updated 7.0 years ago by
Aaron Lun
★ 29k • written 7.0 years ago by
brendan.innes
▴ 20
0
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3
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1.6k
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How to clear a cached S4 method
devtools
S4
methods
cache
7.2 years ago
Michael Steinbaugh
▴ 90
0
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0
replies
1.4k
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Deconvolute bulk RNA-Seq from human epithelial tissue scrapings with immune/blood cell contamination
deconvolution
methods
8.0 years ago
casey.rimland
▴ 170
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Comment: Bile acid analysis with limpa
by
ATpoint
★ 5.0k
Wilcox/Mann-Whitney-U cannot work because it is bound to sample size even when all of group X are lower than all of group Y. At 4 vs 3 the …
Comment: chemmineOB install help
by
Jeremy
• 0
I could install ChemmineOB on my MacBook Pro M1 Max using this procedure **1. Install open-babel and eigen using homebrew and create a cus…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Gordon Smyth
53k
The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
• 0
Cool, glad to hear I wasn't missing some functionality in DESeq2. I don't know that much about the differences between DESeq2 vs edgeR; my …
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Michael Love
43k
Yes, so for one thing, note that Gordon has provided code for doing what you are asking in edgeR, which you can go ahead and use. You aske…
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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