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Is it appropriate to apply linear mixed models to Voom transformed data?
stats
r
RNASeqData
limma
voom
17 months ago
pl23
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3
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4
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R session aborted: prcomp
Biobase
stats
updated 4.1 years ago by
Kevin Blighe
★ 4.0k • written 4.1 years ago by
Gero
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Job:
Two Post-doctoral Positions at University of Campinas
post-doc
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computational biology
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8.7 years ago • updated 8.6 years ago
Benilton Carvalho
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Job:
Data Scientist / Bioinformatician / Statistician at University of California
R
python
stats
bioinformatics
perl
Job
8.7 years ago
clif.duhn
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5
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6
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1.7k
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getting a matrix with diagonal =1
stats
updated 9.3 years ago by
Aaron Lun
★ 28k • written 9.3 years ago by
Angel
▴ 40
3
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3
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2.5k
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ribosome profiling analysis with different dispersions
deseq2
linear model
ribosome profiling
stats
updated 9.7 years ago by
Ryan C. Thompson
★ 7.9k • written 9.7 years ago by
Jake
▴ 90
2
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2
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2.5k
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Memory management in R
stats
updated 10.1 years ago by
Martin Morgan
25k • written 10.1 years ago by
mrk.carty
▴ 30
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5
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1.8k
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Download the stats of Bioconductor
bioconductor
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10.3 years ago
Lluís Revilla Sancho
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Comment: GSEA preranked analysis downstream of DEseq2
by
Ajay
• 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file
by
janwilseo
• 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped"
by
James W. MacDonald
68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
by
donnycrimson
• 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender
by
donnycrimson
• 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
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DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
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