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cytof
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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 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
ghogg
• 0
1
vote
5
replies
1.0k
views
CyTOF Differential Abundance Analysis using DESeq2
deseq2
mass cytometry
CyTOF
updated 3.5 years ago by
Michael Love
41k • written 3.5 years ago by
mikhael.manurung
▴ 270
2
votes
4
replies
903
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
1
vote
2
replies
2.7k
views
Errors when reading CyToF flowSet into flowCore
flowCore
flowcore
CyToF
Rtsne
updated 8.7 years ago by
Jiang, Mike
★ 1.3k • written 8.7 years ago by
clevy
▴ 10
2
votes
2
replies
1.3k
views
Cytofkit - Trouble with writing files after performing the analysis
cytofkit
cytof
write.csv
output
updated 7.5 years ago by
chen_hao
▴ 30 • written 7.5 years ago by
cjackson13
• 0
0
votes
0
replies
618
views
Concatenating different runs from the same pool of barcoded CyTOF samples
batch effect
cytof
4.1 years ago
mikhael.manurung
▴ 270
0
votes
0
replies
1.3k
views
Error from FlowSom to Cytofast
Cytofast
FlowSom
CyTOF
fcs files
3.5 years ago
domenico.somma
• 0
0
votes
0
replies
700
views
flow cytometry differential expression through time
cytofWorkflow
cytof
diffcyt
3.3 years ago
achaillon
• 0
8 results • Page
1 of 1
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Comment: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures
by
Gordon Smyth
50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma
by
Gordon Smyth
50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups.
by
Chris
• 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
Comment: Single-Cell Data Simulation from Bulk RNA-seq
by
wichaidi
• 0
Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.
Votes
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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