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Two-way interaction, linear redundancy
limma
caret
lm
lmer
lme4
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Sindre
▴ 110
0
votes
0
replies
1.3k
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brnn package (Bayesian regularization for feed-forward neural networks)
R
machine learning
brnn
caret
5.9 years ago
elisa.micarelli
▴ 10
1
vote
2
replies
1.5k
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Possible methodologies of machine learning in R that can assimilate continuous variables along gene expression data for microarray classification
classification
machinelearning
microarray
multivariate
caret
updated 8.5 years ago by
Steve Lianoglou
★ 13k • written 8.5 years ago by
svlachavas
▴ 830
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1.7k
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Cannot specify probability function for extraTrees model in caret package
caret
extraTrees
machinelearning
8.9 years ago
liuy12
• 0
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Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123
by
Gordon Smyth
50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! I'll review my code from top to bottom.
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Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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