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rmarkdown
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reset
3
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3
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16k
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Error in Knit R Markdown document (could not find function "Biocexptpkg")
rmarkdown
rstudio
knitr
7.6 years ago
Jon Bråte
▴ 250
0
votes
2
replies
3.6k
views
Error in file.choose() : file choice cancelled
package development
bioconductor
rstudio
rmarkdown
vignettes
6.5 years ago
clarisbaby
• 0
0
votes
2
replies
3.4k
views
installation of package 'rmarkdown' had non-zero exit status
rmarkdown
package updates
updated 7.7 years ago by
James W. MacDonald
65k • written 7.7 years ago by
tarek.mohamed
▴ 10
6
votes
1
reply
3.2k
views
Tutorial:
BoF "Writing papers in Rmarkdown, BiocStyle... (and books, posters)"
biocstyle
Rmarkdown
Tutorial
6.8 years ago
Wolfgang Huber
★ 13k
10
votes
3
replies
3.1k
views
News:
Updates to BiocStyle formatting
BiocStyle
vignettes
rmarkdown
latex
News
6.7 years ago
Andrzej Oleś
▴ 750
3
votes
3
replies
2.0k
views
Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chunk
rmarkdown
suppressWarning
warning
updated 14 months ago by
Mike Smith
★ 6.5k • written 2.4 years ago by
Wolfgang Huber
★ 13k
3
votes
2
replies
1.7k
views
Issue with pandoc-citeproc when rendering the f1000 article Rmd file from BiocWorkFlowTools
BiocWorkflowTools
rmarkdown
updated 6.9 years ago by
Andrzej Oleś
▴ 750 • written 6.9 years ago by
Leonardo Collado Torres
★ 1.0k
1
vote
2
replies
1.4k
views
Display BrowseSeqs output in R Notebook?
BrowseSeqs
DECIPHER
notebook
rmarkdown
updated 4.7 years ago by
Erik Wright
▴ 150 • written 4.7 years ago by
lauren.fitch
• 0
1
vote
1
reply
1.2k
views
Having issues mapping gene Ids during ReportingTools::publish() from Bioconductor.
ReportingTools
RNA-Seq
RMarkdown
updated 3.7 years ago by
James W. MacDonald
65k • written 3.7 years ago by
anthony.nash
▴ 20
1
vote
1
reply
1.1k
views
Best practices for sharing RMarkdown-based supplemental PDFs?
rmarkdown
knitr
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
Keith Hughitt
▴ 180
0
votes
0
replies
618
views
Author footnotes in BiocWorkflowTools::f1000_article template
BiocWorkflowTools
rmarkdown
3.9 years ago
helucro
▴ 70
11 results • Page
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Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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