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Can we use BERMUDA for mass cytometry (CyTOF) data? Unlike scRNA seq. data, CyTOF data may have only 20-40 variables (markers).
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Phenograph offers a number of different functions designed for cytometry data, such as clustering and batch correction in Python. A wrapper for [Phenograph](https://github.com/dpeerlab/phenograph) fun…
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Hello,
I am trying to build using NVIDIA C++ Compiler `nvc++` version 24.5
```
CC := nvc++
CFLAGS := -O3 -fomit-frame-pointer -mp -std=c++11
```
It complains with the following error(s):
`…
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This is a really nice package, thanks for working on this.
I'm struggling with the PlotMxN function, both with the vignette data and my own. As far as I can tell, the function requires matching the…
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Hi,
In the tutorial, it's said "The triangle is colour-coded: White means more significant; Black means more probability that it happens by chance."
But in the paper "ImaCytE: Visual Exploration o…
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Flow cytometry fcs files have a long text header before the binary portion starts (https://en.wikipedia.org/wiki/Flow_Cytometry_Standard), in particular an example there has the binary data starting a…
pcm32 updated
3 years ago
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### Describe the Bug
An assumption is made that all concept synonyms and ancestor information will be input in an aggregated format with each aggregated concept separated by a ` | ` delimiter. That…
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Hi, I just start using cytofkit and I think it is a great tools for mass cytometry data analysis. Recently, I would like to export data file (.FCS) from cytofkit yet I found no cluster channels in the…
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There's a new Bioconductor software package for FCM data online that specifically allows ggplot-style plotting specifically for flow cytometry specific data structures. Might be nice to look into?
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If you think that MFI from a flow cytometry sort is a reasonable enough proxy for binding affinity, you might be interested in the data from https://www.cell.com/immunity/fulltext/S1074-7613(19)30294-…