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Cydar
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Comparison of cydar to other Bioconductor packages for flow cytometry analysis
cydar
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
thkapell
▴ 10
1
vote
6
replies
1.9k
views
Re: Cydar. Can I Normalize CyTOF data with just one FCS file/batch and if so, which normalization mode is recommended?
Cydar
CyTOF
normalization
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
ghogg
• 0
0
votes
4
replies
1.3k
views
Using output from normalizeBatch() outside of cydar package
cydar
mass cytometry
updated 5.4 years ago by
Aaron Lun
★ 28k • written 5.4 years ago by
kenneth.baker
• 0
2
votes
8
replies
1.7k
views
Cydar normalizeBatch specifying batches
Cydar
normalization
normalizeBatch
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
Florent
▴ 10
2
votes
4
replies
1.1k
views
Cydar's countCells tolerance parameter for arcsinh-transformed data
cydar
CyTOF
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
mikhael.manurung
▴ 280
1
vote
2
replies
952
views
cydar: negative values for cell assignment indices
cydar
7.4 years ago
Lukas Weber
• 0
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Comment: [How to construct a model.matrix ]
by
kyj2226
• 0
Thanks to you, I learn a lot. Many thanks, Yujin.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge
by
rania.alanany
• 0
thank you for your advice, I posted separate post.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge
by
Robert Castelo
★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Answer: DESeq2 rerun returns different results
by
ATpoint
★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ]
by
Gordon Smyth
51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Votes
Answer: [How to construct a model.matrix ]
C: DESeq2 baseMean values for each sample
C: DESeq2 baseMean values for each sample
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
A: Some questions for remove batch effect by using mnnCorrect
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ATpoint
★ 4.5k
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