greshamlab / flow Goto Github PK
View Code? Open in Web Editor NEWScripts for processing flow cytometry and FACS data
Scripts for processing flow cytometry and FACS data
The current format restricts and demands the specification of variables that are extraneous to some experiments and unknown for others. We should adopt a more general format. I am writing up a way of doing that now, but it's roughly:
Tab-delimited file, one column is "SampleName", subsequent columns are "Variable1", "Variable2", etc. The values in the variable columns are in a key_value format, so "hours_488" or "dye_acridineOrange" or "estradiol_5nM", this allows us to specify what the variable is later for plotting, but keeps it clean and general. We don't use wells because the Aria doesn't use wells.
SampleName | Variable1 | Variable2 |
---|---|---|
A01 | time_12 | dye_sytoxgreen |
A02 | time_13 | dye_sytoxgreen |
A02 | time_13 | dye_sytoselect |
I am developing this now. I expect people to interface with this format by editing it with a spreadsheet GUI editor. I'd prefer CSV, but tab-delim works to.
This repo needs a comprehensive README
Can't execute loop using xyplot() to generate plots for each sample in final QC step
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