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vignette
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Excluding samples as referenced in SummarizedExperiment vignette
SummarizedExperiment
vignette
2.1 years ago
BioInfoBeginnerrr
• 0
4
votes
5
replies
2.5k
views
Error in the vignette for biomaRt (when accessing an ensembl archive)
biomaRt
vignette
updated 3.1 years ago by
ashleymaeconard
▴ 10 • written 4.5 years ago by
Russ Hyde
▴ 10
2
votes
2
replies
944
views
How to write the installation section in the vignette of a package that has not been sent into Bioconductor yet
newpackage
vignette
installation
updated 4.5 years ago by
shepherl
3.8k • written 4.5 years ago by
Krutik Patel
▴ 10
0
votes
1
reply
913
views
Error executing flowcore vignette
flowcore
vignette
software error
updated 6.6 years ago by
Jiang, Mike
★ 1.3k • written 6.6 years ago by
Robert Baer
▴ 70
7
votes
2
replies
1.3k
views
Duplicated author affiliations in BiocStyle-based HTML document
biocstyle
vignette
updated 6.8 years ago by
Andrzej Oleś
▴ 750 • written 6.8 years ago by
Aaron Lun
★ 28k
0
votes
3
replies
2.4k
views
unable to connect to 'string.uzh.ch' on port 80
STRINGdb
vignette
updated 7.0 years ago by
Gregor Rot
▴ 10 • written 7.0 years ago by
mwinerip
• 0
3
votes
3
replies
1.8k
views
Error running CellMix SampleAnalysis vignette
software error
cellmix
vignette
expressionset
7.3 years ago
gabor.halasz
• 0
2
votes
3
replies
2.3k
views
No color support in ggbio for autoplot
ggbio
autoplot
color
vignette
updated 8.2 years ago by
aaron
▴ 10 • written 8.2 years ago by
timothypyork
• 0
1
vote
2
replies
1.6k
views
GitHub Continuous Integration, unit-tests, vignettes: R Packaging
github
vignette
test
developers
updated 8.3 years ago by
Dan Tenenbaum
★ 8.2k • written 8.3 years ago by
anthonycolombo60
• 0
3
votes
2
replies
1.3k
views
question regarding embedding images in vignette when creating bioconductor package
vignette
updated 8.7 years ago by
Dan Tenenbaum
★ 8.2k • written 8.7 years ago by
KB
▴ 50
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Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
James W. MacDonald
65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
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C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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