Showing : spillover • reset
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how to use the flowCore spillover function
flowCore spillover gatingset2FlowJO
updated 6.4 years ago by ▴ 310 • written 6.4 years ago by • 0
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Spillover matrix in FlowCore doesn't match Compensation Matrix from FlowJo
spillover flowcore compensation matrix bioconductor flow cytometry
7.7 years ago Samuel Ahuno • 0
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6
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spillover::flowCore problem: Error in match(unstained, sampleNames(x))
flowcore spillover flowcytometry
updated 7.7 years ago by • 0 • written 9.6 years ago by • 0
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spillover::flowCore problem: Error: Unable to match stains with controls based on intensity: a single stain matches to several multiple controls.
flowCore spillover compensation matrix bioconductor flow cytometry
7.7 years ago Samuel Ahuno • 0
2
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Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent
flowcore spillover
updated 7.9 years ago by ★ 1.3k • written 7.9 years ago by ▴ 20
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Please help me verify my compensation and spill matrices makes sense ( openCyto package, in flowCore )
flow cytometry flowcore spillover compensation matrix
updated 8.0 years ago by ▴ 360 • written 8.0 years ago by ▴ 20
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Error with spillover function
spillover
8.3 years ago justinyi10 ▴ 10
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Error: Unable to match stains with controls based on intensity: a single stain matches to several multiple controls. - Spillover-flowcore
spillover compensation flowcore
9.5 years ago • updated 9.3 years ago davide.franchina ▴ 10
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How are autofluorescence values used in the spillover/compensate functions?
flowcore flow cytometry compensation spillover
updated 10.6 years ago by ▴ 150 • written 10.6 years ago by ▴ 20
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
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