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tidyverse
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paired tests with tidybulk and edgeR
edgeR
R
tidyverse
tidybulk
10 months ago
Amit Indap
▴ 10
1
vote
3
replies
708
views
Extract specific portion of a string and paste to a new column in R
Rscript
tidyr
dataframe
tidyverse
offtopic
updated 13 months ago by
Marcel Ramos
680 • written 13 months ago by
Nikhil
• 0
1
vote
5
replies
967
views
Tidyverse masking Genefilter after BioConductor update
bioconductor
R
tidyverse
IlluminaHumanMethylationEPICanno.ilm10b4.hg19.
updated 5.1 years ago by
James W. MacDonald
63k • written 5.1 years ago by
jonellevillar
• 0
8
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6
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1.7k
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Error when running "locateVariants" function in "VariantAnnotation" package
variantannotation
tidyverse
genomicfeatures
updated 6.1 years ago by
Hervé Pagès
16k • written 6.1 years ago by
yduan004
▴ 20
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Comment: DataFrame Construction With Non-standard Column
by
Hervé Pagès
16k
SimpleList is a List derivative and List derivatives in general don't need protection. For example, a GRangesList object (which is also a L…
Answer: Deseq2, how to model design for comparing Mutant mouse at age 14 days versus Mu
by
swbarnes2
★ 1.3k
The Status grouping you show above is good to use if you want to simply compare one subset of samples to another subset. The ~Genotype +…
Answer: Remove duplicates of colData in TreeSummarizedExperiment
by
Michael Love
40k
Copying my code from Slack for posterity. James' code is more streamlined for this step I think. ``` # make a dataset that has duplicate s…
Comment: DataFrame Construction With Non-standard Column
by
James W. MacDonald
63k
Oh, ok. I understand. Technically both should work according to what the help page for `DataFrame` says (both `SimpleList` and `list` have …
Comment: DeSeq2 design fails (full model matrix is less than full rank)
by
Basti
▴ 720
As recommended, you can only perform ~group. You can use contrasts do perform the comparison AA5 vs FHIN1 (see [DESeq2 vignette][1]), but t…
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Answer: Further analysis after limma regression output
A: collapseReplicates in DESeq2
Answer: DataFrame Construction With Non-standard Column
Steps needed to change design (relevel factors) in DESeq2
Steps needed to change design (relevel factors) in DESeq2
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