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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
959
views
cydar: negative values for cell assignment indices
cydar
7.4 years ago
Lukas Weber
• 0
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Comment: Struggle with the replicates of epic array data
by
Melisa Tecik
• 0
Thanks you so much for the instructions. I also tried M values as you suggested but sadly the result was the same. Apparently, the problem …
Answer: bioconductor packages on bioconda
by
James W. MacDonald
67k
The bioconda people are responsible for bioconda, so you should ask them if/when they are going to update.
Answer: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome
by
James W. MacDonald
67k
The default for `plotKaryotype` is to use hg19.
Comment: Is it possible to parallelise saveHDF5SummarizedExperiment
by
Stefano Mangiola
▴ 20
saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.
Comment: Create Illmina bead summary data
by
Liu
• 0
Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …
Votes
Answer: Struggle with the replicates of epic array data
Answer: bioconductor packages on bioconda
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
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