tlnagy / fcsfiles.jl Goto Github PK

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Once #1 is merged, I'll register and tag this package and move https://github.com/tlnagy/FCS.jl/blob/689abdd96cfc7d2678727777c3f8c1fc18af7a55/src/FCS.jl#L11-L13 over to FileIO to improve the discoverability of this package.

Test .fcs file works fine, but whhen replaced wit my .fcs files,
flowrun = load(raw"C:\Users\ljame\Documents\GitHub\FCS-with-Julia\FCS_data\BD-FACS-Aria-II.fcs")
I get ther error Non float32 support not implemented yet. Please see github issues for this project. Is there a workaround for this issue?

One short-coming of the current design is that it's annoying to take subsets of the data, i.e. gating the population on various parameters and making sure that the attributes are handled properly. I'm proposing to switch the current dictionary of arrays approach and replacing it with a relational storage type like TypedTables.jl. The hope would be then to allow the following

flowrun[[1,2,7,10]]

to get the data corresponding to the 1st, 2nd, 7th, and 10th cells where flowrun is of type FlowSample. Since this'll be a breaking change (especially with regards to column access), I'm interested in what people think before tackling this.

EDIT: I'm particularly interested in whether there are limitations in using a relational model for flow data.

Thoughts GigaSOM crowd? @laurentheirendt @exaexa @oHunewald, please tag anyone else I might've missed.

• I need more example FCS files
• Test edge cases