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cydar
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2
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8
replies
1.5k
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Cydar normalizeBatch specifying batches
Cydar
normalization
normalizeBatch
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
Florent
▴ 10
1
vote
6
replies
1.5k
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 4.5 years ago by
Aaron Lun
★ 28k • written 4.5 years ago by
ghogg
• 0
2
votes
4
replies
884
views
Cydar's countCells tolerance parameter for arcsinh-transformed data
cydar
CyTOF
updated 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
mikhael.manurung
▴ 270
0
votes
4
replies
1.1k
views
Using output from normalizeBatch() outside of cydar package
cydar
mass cytometry
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
kenneth.baker
• 0
1
vote
2
replies
787
views
cydar: negative values for cell assignment indices
cydar
6.7 years ago
Lukas Weber
• 0
0
votes
1
reply
526
views
Comparison of cydar to other Bioconductor packages for flow cytometry analysis
cydar
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
thkapell
▴ 10
6 results • Page
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Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
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Pierre Lindenbaum
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Gordon Smyth
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Robert Castelo
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